Notebook for VAE integration¶
Notebook for the integration and pathway analysis of the VAE¶
In [1]:
import pandas as pd
import pandas as pd
from collections import defaultdict
import seaborn as sns
import numpy as np
from scivae import VAE
import warnings
warnings.filterwarnings("ignore")
base_dir = '../data/'
data_dir = f'{base_dir}sircle/F6_integrative_comparisons/'
output_dir = f'{base_dir}sircle/F6_integrative_comparisons/'
input_data_dir = f'{base_dir}sircle/F1_DE_input_TvN/'
fig_dir = '../figures/'
supp_dir = f'{base_dir}raw_downloads/supps/'
gene_name = 'hgnc_symbol'
save_fig = False
test_title = 'all_patients_ccRCC'
stats_base_dir = f'{output_dir}'
stats_stats_dir = f'{output_dir}'
stats_output_dir = f'{output_dir}'
stats_fig_dir = fig_dir
stats_vae_dir = f'{output_dir}VAE_configs/'
# Read in the data
stats_data_dir = data_dir
Load sample files and data, save input files¶
In [2]:
gene_id = 'ensembl_gene_id'
# Load in the files that we used for DE analysis and remove any redundent columns
# the VAE excpets just the ID as the index, and then the values
rna_sample_file = f'{input_data_dir}rna_sample_df_sircle_ccRCC.csv'
prot_sample_file = f'{input_data_dir}prot_sample_data_sircle_ccRCC.csv'
# Now we want to merge the clinical info with the cases from the sample df
meth_sample_file = f'{input_data_dir}cpg_sample_data_all_patients_ccRCC_sircle.csv'
tcga_cptac_clin = f'{input_data_dir}clinical_CPTAC_TCGA.csv'
rna_samples = list(pd.read_csv(rna_sample_file)['FullLabel'].values)
prot_samples = list(pd.read_csv(prot_sample_file)['FullLabel'].values)
meth_samples = list(pd.read_csv(meth_sample_file)['FullLabel'].values)
# Only use the filtered i.e. one CpG to one gene mapping for the cpg data
cpg_data_df = pd.read_csv(f'{base_dir}sircle/F2_DE_output_TvN/filtered_cpg_DE_all_patients_ccRCC_sircle.csv')
# Use this one as it has tmm normalised RNA
rna_data_df = pd.read_csv(f'{base_dir}sircle/F2_DE_output_TvN/rna_DE_all_patients_ccRCC_sircle.csv')
prot_data_df = pd.read_csv(f'{base_dir}sircle/F2_DE_output_TvN/prot_DE_all_patients_ccRCC_sircle.csv')
cpg_data_df = cpg_data_df[[gene_id] + meth_samples]
rna_data_df = rna_data_df[[gene_id] + rna_samples]
protein_data_df = prot_data_df[[gene_id] + prot_samples]
rcm_df = pd.read_csv(f'{base_dir}sircle/F3_regulatory_clustering/RCM_all_patients_ccRCC_P0.5-R1.0-M0.1-GENES.csv')
# First filter out any NA values (we're not interested in non SiRCle genes)
rcm_df = rcm_df[rcm_df['Regulation_Grouping_2'] != 'None']
meta_cols = [gene_id, 'external_gene_name', 'entrezgene_id', 'hgnc_symbol', "logFC_rna", "padj_rna",
"CpG_Beta_diff", "padj_meth", "logFC_protein", "padj_protein", "Regulation_Grouping_2"]
# Save to input dir
save_input_data = False
meta_rcm_df = rcm_df[meta_cols].copy()
meta_rcm_df.set_index('ensembl_gene_id', inplace=True)
# Save to the input data dir folder.
if save_input_data:
protein_data_df.to_csv(f'{stats_data_dir}CPTAC_protein.csv', index=False)
rna_data_df.to_csv(f'{stats_data_dir}CPTAC_rna.csv', index=False)
cpg_data_df.to_csv(f'{stats_data_dir}CPTAC_cpg.csv', index=False)
meta_rcm_df.to_csv(f'{stats_data_dir}RCM.csv')
Run Integration¶
In [3]:
from scircm import RCMStats
missing_method='mean'
label = missing_method
sv = RCMStats(rcm_file=f'{stats_data_dir}RCM.csv',
patient_sample_file=tcga_cptac_clin,
meth_file=f'{stats_data_dir}CPTAC_cpg.csv',
meth_sample_file=meth_sample_file,
rna_file=f'{stats_data_dir}CPTAC_rna.csv',
rna_sample_file=rna_sample_file,
protein_file=f'{stats_data_dir}CPTAC_protein.csv',
protein_sample_file=prot_sample_file,
output_folder=stats_vae_dir,
column_id='FullLabel',
condition_column='CondId',
patient_id_column='SafeCases',
run_name=label,
normalise='rows',
verbose=True,
missing_method=missing_method)
-------------------------------------------------------------------------------- WARNING: you cannot have underscores in your case_id names. Please check this before usingthis tool. -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Overlap between SiRCLe gene clusters and protein, RNA, and CpG: 2788 If you used SiRCLe, this should be the total number of genes in your SiRCLe dataset. 6718 First 5 gene IDs in RCM: ['ENSG00000188001', 'ENSG00000167656', 'ENSG00000182183', 'ENSG00000255071', 'ENSG00000180447'] First 5 gene IDs in Protein: [nan, 'ENSG00000167656', 'ENSG00000014138', 'ENSG00000255071', 'ENSG00000164885'] First 5 gene IDs in RNA: ['ENSG00000258716', 'ENSG00000164885', 'ENSG00000235869', 'ENSG00000248506', 'ENSG00000227232'] First 5 gene IDs in Methylation: ['ENSG00000167656', 'ENSG00000164885', 'ENSG00000186470', 'ENSG00000123560', 'ENSG00000180574'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3L.00369 just took the first one. ['RNA_Tumor_C3L.00369_1' 'RNA_Tumor_C3L.00369_2' 'RNA_Tumor_C3L.00369_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3L.00418 just took the first one. ['RNA_Tumor_C3L.00418_1' 'RNA_Tumor_C3L.00418_2' 'RNA_Tumor_C3L.00418_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3L.00447 just took the first one. ['RNA_Tumor_C3L.00447_1' 'RNA_Tumor_C3L.00447_2' 'RNA_Tumor_C3L.00447_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3L.00581 just took the first one. ['RNA_Tumor_C3L.00581_1' 'RNA_Tumor_C3L.00581_2' 'RNA_Tumor_C3L.00581_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3L.00583 just took the first one. ['RNA_Tumor_C3L.00583_1' 'RNA_Tumor_C3L.00583_2' 'RNA_Tumor_C3L.00583_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3L.00606 just took the first one. ['RNA_Tumor_C3L.00606_1' 'RNA_Tumor_C3L.00606_2' 'RNA_Tumor_C3L.00606_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3L.00907 just took the first one. ['RNA_Tumor_C3L.00907_1' 'RNA_Tumor_C3L.00907_2' 'RNA_Tumor_C3L.00907_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3L.01286 just took the first one. ['RNA_Tumor_C3L.01286_1' 'RNA_Tumor_C3L.01286_2' 'RNA_Tumor_C3L.01286_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3L.01287 just took the first one. ['RNA_Tumor_C3L.01287_1' 'RNA_Tumor_C3L.01287_2'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3L.01603 just took the first one. ['RNA_Tumor_C3L.01603_1' 'RNA_Tumor_C3L.01603_2' 'RNA_Tumor_C3L.01603_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3L.01607 just took the first one. ['RNA_Tumor_C3L.01607_1' 'RNA_Tumor_C3L.01607_2' 'RNA_Tumor_C3L.01607_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3L.01836 just took the first one. ['RNA_Tumor_C3L.01836_1' 'RNA_Tumor_C3L.01836_2' 'RNA_Tumor_C3L.01836_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00148 just took the first one. ['RNA_Tumor_C3N.00148_1' 'RNA_Tumor_C3N.00148_2' 'RNA_Tumor_C3N.00148_3' 'RNA_Tumor_C3N.00148_4'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00150 just took the first one. ['RNA_Tumor_C3N.00150_1' 'RNA_Tumor_C3N.00150_2' 'RNA_Tumor_C3N.00150_3' 'RNA_Tumor_C3N.00150_4'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00168 just took the first one. ['RNA_Tumor_C3N.00168_1' 'RNA_Tumor_C3N.00168_2' 'RNA_Tumor_C3N.00168_3' 'RNA_Tumor_C3N.00168_4'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00177 just took the first one. ['RNA_Tumor_C3N.00177_1' 'RNA_Tumor_C3N.00177_2' 'RNA_Tumor_C3N.00177_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00194 just took the first one. ['RNA_Tumor_C3N.00194_1' 'RNA_Tumor_C3N.00194_2'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00310 just took the first one. ['RNA_Tumor_C3N.00310_1' 'RNA_Tumor_C3N.00310_2' 'RNA_Tumor_C3N.00310_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00312 just took the first one. ['RNA_Tumor_C3N.00312_1' 'RNA_Tumor_C3N.00312_2' 'RNA_Tumor_C3N.00312_3' 'RNA_Tumor_C3N.00312_4'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00314 just took the first one. ['RNA_Tumor_C3N.00314_1' 'RNA_Tumor_C3N.00314_2' 'RNA_Tumor_C3N.00314_3' 'RNA_Tumor_C3N.00314_4'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00317 just took the first one. ['RNA_Tumor_C3N.00317_1' 'RNA_Tumor_C3N.00317_2'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00320 just took the first one. ['RNA_Tumor_C3N.00320_1' 'RNA_Tumor_C3N.00320_2' 'RNA_Tumor_C3N.00320_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00390 just took the first one. ['RNA_Tumor_C3N.00390_1' 'RNA_Tumor_C3N.00390_2' 'RNA_Tumor_C3N.00390_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00437 just took the first one. ['RNA_Tumor_C3N.00437_1' 'RNA_Tumor_C3N.00437_2' 'RNA_Tumor_C3N.00437_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00494 just took the first one. ['RNA_Tumor_C3N.00494_1' 'RNA_Tumor_C3N.00494_2' 'RNA_Tumor_C3N.00494_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00573 just took the first one. ['RNA_Tumor_C3N.00573_1' 'RNA_Tumor_C3N.00573_2' 'RNA_Tumor_C3N.00573_3' 'RNA_Tumor_C3N.00573_4'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00577 just took the first one. ['RNA_Tumor_C3N.00577_1' 'RNA_Tumor_C3N.00577_2' 'RNA_Tumor_C3N.00577_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00646 just took the first one. ['RNA_Tumor_C3N.00646_1' 'RNA_Tumor_C3N.00646_2' 'RNA_Tumor_C3N.00646_3' 'RNA_Tumor_C3N.00646_4'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00733 just took the first one. ['RNA_Tumor_C3N.00733_1' 'RNA_Tumor_C3N.00733_2'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00852 just took the first one. ['RNA_Tumor_C3N.00852_1' 'RNA_Tumor_C3N.00852_2'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.00953 just took the first one. ['RNA_Tumor_C3N.00953_1' 'RNA_Tumor_C3N.00953_2' 'RNA_Tumor_C3N.00953_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.01200 just took the first one. ['RNA_Tumor_C3N.01200_1' 'RNA_Tumor_C3N.01200_2' 'RNA_Tumor_C3N.01200_3' 'RNA_Tumor_C3N.01200_4'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.01214 just took the first one. ['RNA_Tumor_C3N.01214_1' 'RNA_Tumor_C3N.01214_2' 'RNA_Tumor_C3N.01214_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.01220 just took the first one. ['RNA_Tumor_C3N.01220_1' 'RNA_Tumor_C3N.01220_2' 'RNA_Tumor_C3N.01220_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.01261 just took the first one. ['RNA_Tumor_C3N.01261_1' 'RNA_Tumor_C3N.01261_2'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.01522 just took the first one. ['RNA_Tumor_C3N.01522_1' 'RNA_Tumor_C3N.01522_2' 'RNA_Tumor_C3N.01522_3'] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Had multiple samples for: C3N.01524 just took the first one. ['RNA_Tumor_C3N.01524_1' 'RNA_Tumor_C3N.01524_2' 'RNA_Tumor_C3N.01524_3'] --------------------------------------------------------------------------------
Look at the missing vs matched data¶
In [4]:
# Get the patient info that has been compiled from the provided sample files
patient_info = sv.patient_clinical_df
# Select the cases with 5 samples
matching_patient_info = patient_info[patient_info['Sample counts'] == 5]
matching_cases = matching_patient_info['SafeCases'].values
print("total number of patients: ", len(patient_info), " vs number with matching data: ", len(matching_patient_info))
matching_cases
total number of patients: 261 vs number with matching data: 59
Out[4]:
array(['C3L.00004', 'C3L.00010', 'C3L.00011', 'C3L.00026', 'C3L.00079',
'C3L.00088', 'C3L.00096', 'C3L.00097', 'C3L.00103', 'C3L.00360',
'C3L.00369', 'C3L.00416', 'C3L.00418', 'C3L.00447', 'C3L.00581',
'C3L.00606', 'C3L.00814', 'C3L.00902', 'C3L.00907', 'C3L.00908',
'C3L.00910', 'C3L.00917', 'C3L.01286', 'C3L.01287', 'C3L.01313',
'C3L.01603', 'C3L.01607', 'C3L.01836', 'C3N.00148', 'C3N.00149',
'C3N.00150', 'C3N.00177', 'C3N.00194', 'C3N.00244', 'C3N.00310',
'C3N.00314', 'C3N.00390', 'C3N.00494', 'C3N.00495', 'C3N.00573',
'C3N.00577', 'C3N.00646', 'C3N.00733', 'C3N.00831', 'C3N.00834',
'C3N.00852', 'C3N.01176', 'C3N.01178', 'C3N.01179', 'C3N.01200',
'C3N.01214', 'C3N.01220', 'C3N.01261', 'C3N.01361', 'C3N.01522',
'C3N.01646', 'C3N.01649', 'C3N.01651', 'C3N.01808'], dtype=object)
Ensure that the old people aren't all stage 4¶
Plot demographics for the input data
In [5]:
cptac = patient_info[~patient_info['case_id'].isnull()]
old = cptac[cptac['AgeGrouped'] == 'old']
young = cptac[cptac['AgeGrouped'] == 'young']
# Now do the number / percent stage 1 and stage 4
s4 = old[old['TumorStage'] == 'Stage IV']
s2 = old[old['TumorStage'] == 'Stage II']
s3 = old[old['TumorStage'] == 'Stage III']
s1 = old[old['TumorStage'] == 'Stage I']
print(len(s1), len(s2), len(s3), len(s4))
print(len(s1)/len(old), len(s2)/len(old), len(s3)/len(old), len(s4)/len(old))
# Now do the number / percent stage 1 and stage 4
s4 = young[young['TumorStage'] == 'Stage IV']
s2 = young[young['TumorStage'] == 'Stage II']
s3 = young[young['TumorStage'] == 'Stage III']
s1 = young[young['TumorStage'] == 'Stage I']
print(len(s1), len(s2), len(s3), len(s4))
print(len(s1)/len(young), len(s2)/len(young), len(s3)/len(young), len(s4)/len(young))
27 9 24 6 0.4090909090909091 0.13636363636363635 0.36363636363636365 0.09090909090909091 7 1 1 0 0.7777777777777778 0.1111111111111111 0.1111111111111111 0.0
In [6]:
import matplotlib.pyplot as plt
palette = ['#483873', '#1BD8A6', '#B117B7', '#AAC7E2', '#FFC107', '#016957', '#9785C0',
'#D09139', '#338A03', '#FF69A1', '#5930B1', '#FFE884', '#35B567', '#1E88E5',
'#ACAD60', '#A2FFB4', '#B618F5', '#854A9C']
plt.rcParams['svg.fonttype'] = 'none' # Ensure text is saved as text
plt.rcParams['figure.figsize'] = (3, 2)
sns.set(rc={'figure.figsize': (3, 2), 'font.family': 'sans-serif',
'font.sans-serif': 'Arial', 'font.size': 9}, style='ticks')
g = sns.catplot(x="Stage", hue="AgeGrouped", col="gender",
order=['Early', 'Late'],
data=patient_info, kind="count", palette='Greys', hue_order=['young', 'middle', 'old'],
height=4, aspect=.7)
plt.xticks(rotation=45, ha='right')
plt.savefig(f'{stats_fig_dir}patient_demographics_all.svg')
plt.show()
g = sns.catplot(x="Stage", hue="AgeGrouped", col="gender",
order=['Early', 'Late'],
data=matching_patient_info, kind="count", palette='Greys', hue_order=['young', 'middle', 'old'],
height=4, aspect=.7)
plt.xticks(rotation=45, ha='right')
plt.savefig(f'{stats_fig_dir}patient_demographics_matched.svg')
plt.show()
g = sns.catplot(x="Stage", hue="AgeGrouped", col="BAP1&PBRM1",
order=['Early', 'Late'],
data=patient_info, kind="count", palette='Greys', hue_order=['young', 'middle', 'old'],
height=4, aspect=.7)
plt.xticks(rotation=45, ha='right')
plt.savefig(f'{stats_fig_dir}patient_demographics_BAP1&PBRM1_all.svg')
plt.show()
g = sns.countplot(x="Stage", hue="AgeGrouped",
order=['Early', 'Late'],
data=matching_patient_info)
plt.xticks(rotation=45, ha='right')
g = sns.catplot(x="TumorStage", hue="AgeGrouped", col="BAP1&PBRM1", hue_order=['young', 'middle', 'old'],
data=patient_info, kind="count", palette='Greys', order=['Stage I', 'Stage II', 'Stage III', 'Stage IV'],
height=4, aspect=.7)
plt.xticks(rotation=45, ha='right')
plt.savefig(f'{stats_fig_dir}patient_demographics_BAP1&PBRM1.svg')
plt.show()
Train integration model (VAE)¶
In [7]:
train = False
if train:
epochs = 100
batch_size = 16
num_nodes = 5
mmd_weight = 0.25
loss = {'loss_type': 'mse', 'distance_metric': 'mmd', 'mmd_weight': mmd_weight}
config = {"loss": loss,
"encoding": {"layers": [{"num_nodes": num_nodes, "activation_fn": "relu"}]},
"decoding": {"layers": [{"num_nodes": num_nodes, "activation_fn": "relu"}]},
"latent": {"num_nodes": 1},
"optimiser": {"params": {'learning_rate': 0.01}, "name": "adam"},
"epochs": epochs,
"batch_size": batch_size,
"scale_data": False
}
training_cases = matching_cases # Use matching cases for training
sv.train_vae(cases=matching_cases, config=config)
sv.save() # Save the information we have generated.
else:
sv.load_saved_vaes()
sv.load_saved_encodings(f'{sv.output_folder}encoded_df_{label}.csv')
sv.load_saved_inputs(f'{sv.output_folder}vae_input_df_{label}.csv')
sv.load_saved_raws(f'{sv.output_folder}raw_input_df_{label}.csv')
7 -------------------------------------------------------------------------------- Encoder summary: -------------------------------------------------------------------------------- Model: "encoder" __________________________________________________________________________________________________ Layer (type) Output Shape Param # Connected to ================================================================================================== default_input (InputLayer) [(None, 7)] 0 [] dense (Dense) (None, 5) 40 ['default_input[0][0]'] z_mean (Dense) (None, 1) 6 ['dense[0][0]'] z_log_sigma (Dense) (None, 1) 6 ['dense[0][0]'] z (Lambda) (None, 1) 0 ['z_mean[0][0]', 'z_log_sigma[0][0]'] ================================================================================================== Total params: 52 Trainable params: 52 Non-trainable params: 0 __________________________________________________________________________________________________ None -------------------------------------------------------------------------------- Decoder summary: -------------------------------------------------------------------------------- Model: "decoder" _________________________________________________________________ Layer (type) Output Shape Param # ================================================================= z_sampling (InputLayer) [(None, 1)] 0 dense_1 (Dense) (None, 5) 10 dense_2 (Dense) (None, 7) 42 ================================================================= Total params: 52 Trainable params: 52 Non-trainable params: 0 _________________________________________________________________ None
2022-06-07 11:05:11.817181: I tensorflow/core/platform/cpu_feature_guard.cc:193] This TensorFlow binary is optimized with oneAPI Deep Neural Network Library (oneDNN) to use the following CPU instructions in performance-critical operations: AVX2 FMA To enable them in other operations, rebuild TensorFlow with the appropriate compiler flags.
7 -------------------------------------------------------------------------------- Encoder summary: -------------------------------------------------------------------------------- Model: "encoder" __________________________________________________________________________________________________ Layer (type) Output Shape Param # Connected to ================================================================================================== default_input (InputLayer) [(None, 7)] 0 [] dense_3 (Dense) (None, 5) 40 ['default_input[0][0]'] z_mean (Dense) (None, 1) 6 ['dense_3[0][0]'] z_log_sigma (Dense) (None, 1) 6 ['dense_3[0][0]'] z (Lambda) (None, 1) 0 ['z_mean[0][0]', 'z_log_sigma[0][0]'] ================================================================================================== Total params: 52 Trainable params: 52 Non-trainable params: 0 __________________________________________________________________________________________________ None -------------------------------------------------------------------------------- Decoder summary: -------------------------------------------------------------------------------- Model: "decoder" _________________________________________________________________ Layer (type) Output Shape Param # ================================================================= z_sampling (InputLayer) [(None, 1)] 0 dense_4 (Dense) (None, 5) 10 dense_5 (Dense) (None, 7) 42 ================================================================= Total params: 52 Trainable params: 52 Non-trainable params: 0 _________________________________________________________________ None 7 -------------------------------------------------------------------------------- Encoder summary: -------------------------------------------------------------------------------- Model: "encoder" __________________________________________________________________________________________________ Layer (type) Output Shape Param # Connected to ================================================================================================== default_input (InputLayer) [(None, 7)] 0 [] dense_6 (Dense) (None, 5) 40 ['default_input[0][0]'] z_mean (Dense) (None, 1) 6 ['dense_6[0][0]'] z_log_sigma (Dense) (None, 1) 6 ['dense_6[0][0]'] z (Lambda) (None, 1) 0 ['z_mean[0][0]', 'z_log_sigma[0][0]'] ================================================================================================== Total params: 52 Trainable params: 52 Non-trainable params: 0 __________________________________________________________________________________________________ None -------------------------------------------------------------------------------- Decoder summary: -------------------------------------------------------------------------------- Model: "decoder" _________________________________________________________________ Layer (type) Output Shape Param # ================================================================= z_sampling (InputLayer) [(None, 1)] 0 dense_7 (Dense) (None, 5) 10 dense_8 (Dense) (None, 7) 42 ================================================================= Total params: 52 Trainable params: 52 Non-trainable params: 0 _________________________________________________________________ None 7 -------------------------------------------------------------------------------- Encoder summary: -------------------------------------------------------------------------------- Model: "encoder" __________________________________________________________________________________________________ Layer (type) Output Shape Param # Connected to ================================================================================================== default_input (InputLayer) [(None, 7)] 0 [] dense_9 (Dense) (None, 5) 40 ['default_input[0][0]'] z_mean (Dense) (None, 1) 6 ['dense_9[0][0]'] z_log_sigma (Dense) (None, 1) 6 ['dense_9[0][0]'] z (Lambda) (None, 1) 0 ['z_mean[0][0]', 'z_log_sigma[0][0]'] ================================================================================================== Total params: 52 Trainable params: 52 Non-trainable params: 0 __________________________________________________________________________________________________ None -------------------------------------------------------------------------------- Decoder summary: -------------------------------------------------------------------------------- Model: "decoder" _________________________________________________________________ Layer (type) Output Shape Param # ================================================================= z_sampling (InputLayer) [(None, 1)] 0 dense_10 (Dense) (None, 5) 10 dense_11 (Dense) (None, 7) 42 ================================================================= Total params: 52 Trainable params: 52 Non-trainable params: 0 _________________________________________________________________ None 7 -------------------------------------------------------------------------------- Encoder summary: -------------------------------------------------------------------------------- Model: "encoder" __________________________________________________________________________________________________ Layer (type) Output Shape Param # Connected to ================================================================================================== default_input (InputLayer) [(None, 7)] 0 [] dense_12 (Dense) (None, 5) 40 ['default_input[0][0]'] z_mean (Dense) (None, 1) 6 ['dense_12[0][0]'] z_log_sigma (Dense) (None, 1) 6 ['dense_12[0][0]'] z (Lambda) (None, 1) 0 ['z_mean[0][0]', 'z_log_sigma[0][0]'] ================================================================================================== Total params: 52 Trainable params: 52 Non-trainable params: 0 __________________________________________________________________________________________________ None -------------------------------------------------------------------------------- Decoder summary: -------------------------------------------------------------------------------- Model: "decoder" _________________________________________________________________ Layer (type) Output Shape Param # ================================================================= z_sampling (InputLayer) [(None, 1)] 0 dense_13 (Dense) (None, 5) 10 dense_14 (Dense) (None, 7) 42 ================================================================= Total params: 52 Trainable params: 52 Non-trainable params: 0 _________________________________________________________________ None 7 -------------------------------------------------------------------------------- Encoder summary: -------------------------------------------------------------------------------- Model: "encoder" __________________________________________________________________________________________________ Layer (type) Output Shape Param # Connected to ================================================================================================== default_input (InputLayer) [(None, 7)] 0 [] dense_15 (Dense) (None, 5) 40 ['default_input[0][0]'] z_mean (Dense) (None, 1) 6 ['dense_15[0][0]'] z_log_sigma (Dense) (None, 1) 6 ['dense_15[0][0]'] z (Lambda) (None, 1) 0 ['z_mean[0][0]', 'z_log_sigma[0][0]'] ================================================================================================== Total params: 52 Trainable params: 52 Non-trainable params: 0 __________________________________________________________________________________________________ None -------------------------------------------------------------------------------- Decoder summary: -------------------------------------------------------------------------------- Model: "decoder" _________________________________________________________________ Layer (type) Output Shape Param # ================================================================= z_sampling (InputLayer) [(None, 1)] 0 dense_16 (Dense) (None, 5) 10 dense_17 (Dense) (None, 7) 42 ================================================================= Total params: 52 Trainable params: 52 Non-trainable params: 0 _________________________________________________________________ None 7 -------------------------------------------------------------------------------- Encoder summary: -------------------------------------------------------------------------------- Model: "encoder" __________________________________________________________________________________________________ Layer (type) Output Shape Param # Connected to ================================================================================================== default_input (InputLayer) [(None, 7)] 0 [] dense_18 (Dense) (None, 5) 40 ['default_input[0][0]'] z_mean (Dense) (None, 1) 6 ['dense_18[0][0]'] z_log_sigma (Dense) (None, 1) 6 ['dense_18[0][0]'] z (Lambda) (None, 1) 0 ['z_mean[0][0]', 'z_log_sigma[0][0]'] ================================================================================================== Total params: 52 Trainable params: 52 Non-trainable params: 0 __________________________________________________________________________________________________ None -------------------------------------------------------------------------------- Decoder summary: -------------------------------------------------------------------------------- Model: "decoder" _________________________________________________________________ Layer (type) Output Shape Param # ================================================================= z_sampling (InputLayer) [(None, 1)] 0 dense_19 (Dense) (None, 5) 10 dense_20 (Dense) (None, 7) 42 ================================================================= Total params: 52 Trainable params: 52 Non-trainable params: 0 _________________________________________________________________ None 7 -------------------------------------------------------------------------------- Encoder summary: -------------------------------------------------------------------------------- Model: "encoder" __________________________________________________________________________________________________ Layer (type) Output Shape Param # Connected to ================================================================================================== default_input (InputLayer) [(None, 7)] 0 [] dense_21 (Dense) (None, 5) 40 ['default_input[0][0]'] z_mean (Dense) (None, 1) 6 ['dense_21[0][0]'] z_log_sigma (Dense) (None, 1) 6 ['dense_21[0][0]'] z (Lambda) (None, 1) 0 ['z_mean[0][0]', 'z_log_sigma[0][0]'] ================================================================================================== Total params: 52 Trainable params: 52 Non-trainable params: 0 __________________________________________________________________________________________________ None -------------------------------------------------------------------------------- Decoder summary: -------------------------------------------------------------------------------- Model: "decoder" _________________________________________________________________ Layer (type) Output Shape Param # ================================================================= z_sampling (InputLayer) [(None, 1)] 0 dense_22 (Dense) (None, 5) 10 dense_23 (Dense) (None, 7) 42 ================================================================= Total params: 52 Trainable params: 52 Non-trainable params: 0 _________________________________________________________________ None 7 -------------------------------------------------------------------------------- Encoder summary: -------------------------------------------------------------------------------- Model: "encoder" __________________________________________________________________________________________________ Layer (type) Output Shape Param # Connected to ================================================================================================== default_input (InputLayer) [(None, 7)] 0 [] dense_24 (Dense) (None, 5) 40 ['default_input[0][0]'] z_mean (Dense) (None, 1) 6 ['dense_24[0][0]'] z_log_sigma (Dense) (None, 1) 6 ['dense_24[0][0]'] z (Lambda) (None, 1) 0 ['z_mean[0][0]', 'z_log_sigma[0][0]'] ================================================================================================== Total params: 52 Trainable params: 52 Non-trainable params: 0 __________________________________________________________________________________________________ None -------------------------------------------------------------------------------- Decoder summary: -------------------------------------------------------------------------------- Model: "decoder" _________________________________________________________________ Layer (type) Output Shape Param # ================================================================= z_sampling (InputLayer) [(None, 1)] 0 dense_25 (Dense) (None, 5) 10 dense_26 (Dense) (None, 7) 42 ================================================================= Total params: 52 Trainable params: 52 Non-trainable params: 0 _________________________________________________________________ None 7 -------------------------------------------------------------------------------- Encoder summary: -------------------------------------------------------------------------------- Model: "encoder" __________________________________________________________________________________________________ Layer (type) Output Shape Param # Connected to ================================================================================================== default_input (InputLayer) [(None, 7)] 0 [] dense_27 (Dense) (None, 5) 40 ['default_input[0][0]'] z_mean (Dense) (None, 1) 6 ['dense_27[0][0]'] z_log_sigma (Dense) (None, 1) 6 ['dense_27[0][0]'] z (Lambda) (None, 1) 0 ['z_mean[0][0]', 'z_log_sigma[0][0]'] ================================================================================================== Total params: 52 Trainable params: 52 Non-trainable params: 0 __________________________________________________________________________________________________ None -------------------------------------------------------------------------------- Decoder summary: -------------------------------------------------------------------------------- Model: "decoder" _________________________________________________________________ Layer (type) Output Shape Param # ================================================================= z_sampling (InputLayer) [(None, 1)] 0 dense_28 (Dense) (None, 5) 10 dense_29 (Dense) (None, 7) 42 ================================================================= Total params: 52 Trainable params: 52 Non-trainable params: 0 _________________________________________________________________ None
Run stats on different comparisons!¶
In [8]:
from sciutil import SciUtil
u = SciUtil()
u.warn_p(['AgeGrouped'])
sv.run_vae_stats(cond_label='AgeGrouped', cond0='young', cond1='old')
u.warn_p(['Mutation'])
sv.run_vae_stats(cond_label='BAP1&PBRM1', cond0='BAP1', cond1='PBRM1')
u.warn_p(['S4 vs S1'])
sv.run_vae_stats(cond_label='TumorStage', cond0='Stage I', cond1='Stage IV')
-------------------------------------------------------------------------------- AgeGrouped -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Summary Cond1: 56 vs Cond0: 8 mannwhitneyu stat (old-young) Integrated padj (old-young) \ count 1420.000000 1420.000000 mean 222.261972 0.933186 std 51.317501 0.068463 min 79.000000 0.639473 25% 188.000000 0.893602 50% 223.000000 0.954762 75% 258.250000 0.986121 max 372.000000 1.000000 Integrated pval (old-young) Integrated diff (old-young) \ count 1420.000000 1420.000000 mean 0.490597 -0.003830 std 0.294965 0.189493 min 0.001672 -0.747490 25% 0.231924 -0.110745 50% 0.490876 -0.011870 75% 0.742369 0.099190 max 1.000000 0.785683 Integrated mean (young) Integrated mean (old) count 1420.000000 1420.000000 mean 0.048690 0.044860 std 0.770364 0.726576 min -1.941687 -1.839760 25% -0.406316 -0.361654 50% -0.037527 -0.078767 75% 0.316689 0.187991 max 2.048632 1.980273 -------------------------------------------------------------------------------- TPDS_TMDE Integrated mean (young): NOT normally distributed TPDS_TMDE Integrated mean (old): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 56 vs Cond0: 8 mannwhitneyu stat (old-young) Integrated padj (old-young) \ count 1069.000000 1069.000000 mean 209.865295 0.770432 std 56.929622 0.197536 min 55.000000 0.231230 25% 171.000000 0.677043 50% 210.000000 0.829290 75% 249.000000 0.934431 max 369.000000 1.000000 Integrated pval (old-young) Integrated diff (old-young) \ count 1069.000000 1069.000000 mean 0.443276 -0.041484 std 0.302310 0.154796 min 0.000216 -0.674443 25% 0.173881 -0.128795 50% 0.418136 -0.026541 75% 0.712405 0.058096 max 1.000000 0.508046 Integrated mean (young) Integrated mean (old) count 1069.000000 1069.000000 mean -0.126007 -0.167492 std 0.830104 0.831869 min -1.353714 -1.286995 25% -0.783881 -0.816976 50% -0.359374 -0.461596 75% 0.805239 0.815412 max 1.715993 1.701468 -------------------------------------------------------------------------------- TPDE_TMDS Integrated mean (young): NOT normally distributed TPDE_TMDS Integrated mean (old): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 56 vs Cond0: 8 mannwhitneyu stat (old-young) Integrated padj (old-young) \ count 313.000000 313.000000 mean 203.492013 0.668432 std 58.979685 0.199788 min 69.000000 0.123924 25% 161.000000 0.513374 50% 200.000000 0.652299 75% 252.000000 0.830456 max 356.000000 1.000000 Integrated pval (old-young) Integrated diff (old-young) \ count 313.000000 313.000000 mean 0.395285 -0.091849 std 0.291038 0.292004 min 0.000896 -1.078334 25% 0.132341 -0.284512 50% 0.331360 -0.095850 75% 0.625197 0.131234 max 1.000000 0.772396 Integrated mean (young) Integrated mean (old) count 313.000000 313.000000 mean 0.105253 0.013403 std 0.584182 0.541674 min -2.001875 -1.914269 25% -0.259332 -0.368499 50% 0.149075 0.106208 75% 0.489664 0.424285 max 1.515369 1.167666 -------------------------------------------------------------------------------- TMDE Integrated mean (young): NOT normally distributed TMDE Integrated mean (old): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 56 vs Cond0: 8 mannwhitneyu stat (old-young) Integrated padj (old-young) \ count 803.000000 803.000000 mean 276.201743 0.385017 std 62.578164 0.259215 min 63.000000 0.014704 25% 243.000000 0.173410 50% 286.000000 0.321127 75% 320.000000 0.532627 max 412.000000 1.000000 Integrated pval (old-young) Integrated diff (old-young) \ count 803.000000 803.000000 mean 0.266404 0.245015 std 0.274010 0.324696 min 0.000018 -1.074049 25% 0.044054 0.072088 50% 0.161163 0.274438 75% 0.400980 0.455982 max 1.000000 1.375791 Integrated mean (young) Integrated mean (old) count 803.000000 803.000000 mean -0.220406 0.024609 std 0.735315 0.619668 min -2.116405 -1.357285 25% -0.717126 -0.432557 50% -0.280204 -0.057173 75% 0.219129 0.394617 max 2.398970 2.153304 -------------------------------------------------------------------------------- TMDS Integrated mean (young): NOT normally distributed TMDS Integrated mean (old): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 56 vs Cond0: 8 mannwhitneyu stat (old-young) Integrated padj (old-young) \ count 539.000000 539.000000 mean 250.530612 0.683886 std 54.735597 0.172350 min 81.000000 0.396896 25% 208.000000 0.551028 50% 257.000000 0.681829 75% 291.500000 0.817606 max 368.000000 1.000000 Integrated pval (old-young) Integrated diff (old-young) \ count 539.000000 539.000000 mean 0.395653 0.173275 std 0.289174 0.392225 min 0.002336 -1.099820 25% 0.140573 -0.105316 50% 0.341547 0.221693 75% 0.618149 0.452459 max 1.000000 1.398373 Integrated mean (young) Integrated mean (old) count 539.000000 539.000000 mean -0.075385 0.097890 std 0.760496 0.688098 min -2.970549 -2.740273 25% -0.535802 -0.249099 50% -0.068381 0.172698 75% 0.457778 0.568858 max 1.915523 1.718554 -------------------------------------------------------------------------------- TPDS Integrated mean (young): NOT normally distributed TPDS Integrated mean (old): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 56 vs Cond0: 8 mannwhitneyu stat (old-young) Integrated padj (old-young) \ count 415.000000 415.000000 mean 271.493976 0.421486 std 65.746434 0.308457 min 82.000000 0.068662 25% 221.000000 0.132398 50% 281.000000 0.346926 75% 327.000000 0.687005 max 383.000000 1.000000 Integrated pval (old-young) Integrated diff (old-young) \ count 415.000000 415.000000 mean 0.299522 -0.218020 std 0.310466 0.315853 min 0.000613 -0.983795 25% 0.033817 -0.446834 50% 0.173881 -0.240644 75% 0.516495 0.017580 max 1.000000 0.610423 Integrated mean (young) Integrated mean (old) count 415.000000 415.000000 mean 0.077109 -0.140911 std 0.451722 0.361264 min -1.584353 -1.327478 25% -0.200777 -0.345453 50% 0.110712 -0.105236 75% 0.393318 0.088686 max 1.074873 1.113607 -------------------------------------------------------------------------------- MDE Integrated mean (young): NOT normally distributed MDE Integrated mean (old): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 56 vs Cond0: 8 mannwhitneyu stat (old-young) Integrated padj (old-young) \ count 257.000000 257.000000 mean 179.284047 0.485419 std 62.337547 0.311047 min 30.000000 0.001768 25% 131.000000 0.193922 50% 171.000000 0.454997 75% 224.000000 0.776763 max 344.000000 1.000000 Integrated pval (old-young) Integrated diff (old-young) \ count 257.000000 257.000000 mean 0.333660 -0.243507 std 0.320233 0.346243 min 0.000007 -1.229605 25% 0.051310 -0.492188 50% 0.231924 -0.225928 75% 0.583328 -0.008641 max 1.000000 0.682164 Integrated mean (young) Integrated mean (old) count 257.000000 257.000000 mean 0.134285 -0.109223 std 0.542793 0.462282 min -1.520224 -1.527887 25% -0.200261 -0.378527 50% 0.153863 -0.072534 75% 0.508885 0.194505 max 1.495358 1.280142 -------------------------------------------------------------------------------- TPDE Integrated mean (young): NOT normally distributed TPDE Integrated mean (old): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 56 vs Cond0: 8 mannwhitneyu stat (old-young) Integrated padj (old-young) \ count 1308.000000 1308.000000 mean 247.435015 0.686435 std 57.998466 0.223175 min 52.000000 0.049690 25% 205.000000 0.483380 50% 248.000000 0.740832 75% 293.250000 0.888300 max 407.000000 1.000000 Integrated pval (old-young) Integrated diff (old-young) \ count 1308.000000 1308.000000 mean 0.410341 0.066971 std 0.306114 0.184857 min 0.000038 -0.537729 25% 0.121954 -0.067711 50% 0.373248 0.059475 75% 0.668263 0.191736 max 1.000000 0.611403 Integrated mean (young) Integrated mean (old) count 1308.000000 1308.000000 mean 0.513067 0.580039 std 1.044463 0.983080 min -0.969205 -0.932439 25% -0.263937 -0.118848 50% 0.178823 0.240338 75% 1.441019 1.463751 max 3.622106 3.498537 -------------------------------------------------------------------------------- MDE_TMDS Integrated mean (young): NOT normally distributed MDE_TMDS Integrated mean (old): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 56 vs Cond0: 8 mannwhitneyu stat (old-young) Integrated padj (old-young) \ count 131.000000 131.000000 mean 212.656489 0.712683 std 59.155047 0.209073 min 91.000000 0.097282 25% 167.000000 0.507832 50% 214.000000 0.750274 75% 253.500000 0.933251 max 381.000000 1.000000 Integrated pval (old-young) Integrated diff (old-young) \ count 131.000000 131.000000 mean 0.423512 -0.076454 std 0.309973 0.312944 min 0.000743 -1.004244 25% 0.143371 -0.280692 50% 0.395322 -0.049140 75% 0.712405 0.141001 max 1.000000 0.838019 Integrated mean (young) Integrated mean (old) count 131.000000 131.000000 mean 0.127795 0.051341 std 0.657638 0.609409 min -1.701344 -1.761892 25% -0.360623 -0.284686 50% 0.139985 0.056952 75% 0.647476 0.479532 max 1.457658 1.212816 -------------------------------------------------------------------------------- MDS Integrated mean (old): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 56 vs Cond0: 8 mannwhitneyu stat (old-young) Integrated padj (old-young) \ count 463.000000 463.000000 mean 201.786177 0.732877 std 57.136122 0.231689 min 57.000000 0.099678 25% 163.000000 0.630263 50% 201.000000 0.804586 75% 242.000000 0.919029 max 359.000000 1.000000 Integrated pval (old-young) Integrated diff (old-young) \ count 463.000000 463.000000 mean 0.433959 -0.119217 std 0.305587 0.233224 min 0.000269 -0.821770 25% 0.161163 -0.263856 50% 0.406637 -0.088908 75% 0.697579 0.020180 max 1.000000 0.539676 Integrated mean (young) Integrated mean (old) count 463.000000 463.000000 mean 0.119429 0.000212 std 0.760733 0.795969 min -1.580338 -1.734891 25% -0.383509 -0.526085 50% -0.027600 -0.209923 75% 0.332835 0.139012 max 2.064413 2.022199 -------------------------------------------------------------------------------- MDS_TMDE Integrated mean (young): NOT normally distributed MDS_TMDE Integrated mean (old): NOT normally distributed -------------------------------------------------------------------------------- Mutation -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Summary Cond1: 33 vs Cond0: 13 mannwhitneyu stat (PBRM1-BAP1) Integrated padj (PBRM1-BAP1) \ count 1420.000000 1420.000000 mean 211.435915 0.647174 std 57.003895 0.276343 min 6.000000 0.000552 25% 174.000000 0.472458 50% 212.000000 0.724253 75% 251.000000 0.879938 max 398.000000 1.000000 Integrated pval (PBRM1-BAP1) Integrated diff (PBRM1-BAP1) \ count 1.420000e+03 1420.000000 mean 4.051770e-01 -0.016508 std 3.107984e-01 0.240597 min 3.889192e-07 -1.307524 25% 1.184473e-01 -0.136284 50% 3.667168e-01 -0.009702 75% 6.605729e-01 0.098948 max 1.000000e+00 1.358737 Integrated mean (BAP1) Integrated mean (PBRM1) count 1420.000000 1420.000000 mean 0.060012 0.043504 std 0.731631 0.736650 min -1.823087 -1.803238 25% -0.385498 -0.390405 50% -0.044593 -0.085374 75% 0.291939 0.201935 max 1.992189 2.030184 -------------------------------------------------------------------------------- TPDS_TMDE Integrated mean (BAP1): NOT normally distributed TPDS_TMDE Integrated mean (PBRM1): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 33 vs Cond0: 13 mannwhitneyu stat (PBRM1-BAP1) Integrated padj (PBRM1-BAP1) \ count 1069.000000 1069.000000 mean 213.859682 0.470629 std 67.706163 0.295635 min 7.000000 0.000473 25% 165.000000 0.202590 50% 218.000000 0.456609 75% 264.000000 0.720556 max 386.000000 1.000000 Integrated pval (PBRM1-BAP1) Integrated diff (PBRM1-BAP1) \ count 1.069000e+03 1069.000000 mean 3.228968e-01 0.000132 std 3.005303e-01 0.202758 min 4.420249e-07 -1.095145 25% 5.097919e-02 -0.120929 50% 2.319352e-01 0.009034 75% 5.419332e-01 0.121346 max 1.000000e+00 0.679941 Integrated mean (BAP1) Integrated mean (PBRM1) count 1069.000000 1069.000000 mean -0.156558 -0.156426 std 0.826344 0.830394 min -1.315168 -1.304375 25% -0.813609 -0.825298 50% -0.424591 -0.442317 75% 0.784987 0.826570 max 1.750236 1.710146 -------------------------------------------------------------------------------- TPDE_TMDS Integrated mean (BAP1): NOT normally distributed TPDE_TMDS Integrated mean (PBRM1): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 33 vs Cond0: 13 mannwhitneyu stat (PBRM1-BAP1) Integrated padj (PBRM1-BAP1) \ count 313.000000 313.000000 mean 206.805112 0.458439 std 68.831341 0.300420 min 20.000000 0.000391 25% 155.000000 0.173494 50% 203.000000 0.459467 75% 258.000000 0.721809 max 396.000000 1.000000 Integrated pval (PBRM1-BAP1) Integrated diff (PBRM1-BAP1) \ count 313.000000 313.000000 mean 0.318337 -0.043556 std 0.302209 0.397334 min 0.000002 -1.475379 25% 0.045452 -0.274214 50% 0.231935 -0.040217 75% 0.541933 0.229530 max 1.000000 1.137583 Integrated mean (BAP1) Integrated mean (PBRM1) count 313.000000 313.000000 mean 0.053641 0.010085 std 0.610276 0.561982 min -1.772228 -2.085427 25% -0.350247 -0.343706 50% 0.047926 0.088486 75% 0.499532 0.427474 max 1.534708 1.187935 -------------------------------------------------------------------------------- TMDE Integrated mean (PBRM1): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 33 vs Cond0: 13 mannwhitneyu stat (PBRM1-BAP1) Integrated padj (PBRM1-BAP1) \ count 803.000000 803.000000 mean 201.438356 0.508041 std 64.853256 0.310917 min 12.000000 0.000667 25% 155.000000 0.237425 50% 200.000000 0.497520 75% 246.000000 0.807558 max 377.000000 1.000000 Integrated pval (PBRM1-BAP1) Integrated diff (PBRM1-BAP1) \ count 8.030000e+02 803.000000 mean 3.463774e-01 -0.035353 std 3.134513e-01 0.348489 min 8.310592e-07 -1.090203 25% 6.031719e-02 -0.261538 50% 2.515481e-01 -0.044348 75% 6.084345e-01 0.170750 max 1.000000e+00 1.250648 Integrated mean (BAP1) Integrated mean (PBRM1) count 803.000000 803.000000 mean 0.008592 -0.026761 std 0.668805 0.643233 min -1.793969 -1.651575 25% -0.471813 -0.508675 50% -0.054870 -0.074752 75% 0.422243 0.356186 max 2.095483 2.265657 -------------------------------------------------------------------------------- TMDS Integrated mean (BAP1): NOT normally distributed TMDS Integrated mean (PBRM1): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 33 vs Cond0: 13 mannwhitneyu stat (PBRM1-BAP1) Integrated padj (PBRM1-BAP1) \ count 539.000000 539.000000 mean 203.712430 0.559955 std 66.264094 0.352065 min 32.000000 0.001353 25% 158.000000 0.210707 50% 206.000000 0.621717 75% 242.500000 0.926670 max 399.000000 1.000000 Integrated pval (PBRM1-BAP1) Integrated diff (PBRM1-BAP1) \ count 539.000000 539.000000 mean 0.383281 -0.090012 std 0.332185 0.573232 min 0.000007 -2.144847 25% 0.053947 -0.392351 50% 0.317203 -0.019088 75% 0.696292 0.232629 max 1.000000 2.034626 Integrated mean (BAP1) Integrated mean (PBRM1) count 539.000000 539.000000 mean 0.101081 0.011070 std 0.759355 0.722810 min -2.838331 -2.730878 25% -0.377916 -0.419551 50% 0.132324 0.038795 75% 0.620049 0.488640 max 2.797310 1.928402 -------------------------------------------------------------------------------- TPDS Integrated mean (BAP1): NOT normally distributed TPDS Integrated mean (PBRM1): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 33 vs Cond0: 13 mannwhitneyu stat (PBRM1-BAP1) Integrated padj (PBRM1-BAP1) \ count 415.000000 415.000000 mean 233.946988 0.414879 std 67.408461 0.296828 min 41.000000 0.005059 25% 186.500000 0.149217 50% 244.000000 0.355068 75% 285.000000 0.637492 max 394.000000 1.000000 Integrated pval (PBRM1-BAP1) Integrated diff (PBRM1-BAP1) \ count 415.000000 415.000000 mean 0.293611 -0.089818 std 0.299616 0.340600 min 0.000013 -1.489131 25% 0.038113 -0.307648 50% 0.179673 -0.137078 75% 0.479271 0.132980 max 1.000000 1.043621 Integrated mean (BAP1) Integrated mean (PBRM1) count 415.000000 415.000000 mean -0.053647 -0.143465 std 0.391555 0.395650 min -1.625804 -1.528071 25% -0.267128 -0.376488 50% -0.018497 -0.100035 75% 0.209086 0.106013 max 1.055517 0.972513 -------------------------------------------------------------------------------- MDE Integrated mean (BAP1): NOT normally distributed MDE Integrated mean (PBRM1): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 33 vs Cond0: 13 mannwhitneyu stat (PBRM1-BAP1) Integrated padj (PBRM1-BAP1) \ count 257.000000 257.000000 mean 208.937743 0.383163 std 73.310955 0.306613 min 49.000000 0.001462 25% 152.000000 0.098081 50% 203.000000 0.285419 75% 264.000000 0.651800 max 401.000000 1.000000 Integrated pval (PBRM1-BAP1) Integrated diff (PBRM1-BAP1) \ count 257.000000 257.000000 mean 0.279811 -0.026099 std 0.299453 0.450607 min 0.000006 -1.277391 25% 0.024806 -0.361047 50% 0.143265 -0.066706 75% 0.494557 0.272922 max 1.000000 1.505993 Integrated mean (BAP1) Integrated mean (PBRM1) count 257.000000 257.000000 mean -0.066877 -0.092976 std 0.551952 0.495781 min -1.748636 -1.732282 25% -0.446891 -0.369507 50% 0.012463 -0.061378 75% 0.332758 0.199427 max 0.983238 1.356011 -------------------------------------------------------------------------------- TPDE Integrated mean (BAP1): NOT normally distributed TPDE Integrated mean (PBRM1): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 33 vs Cond0: 13 mannwhitneyu stat (PBRM1-BAP1) Integrated padj (PBRM1-BAP1) \ count 1308.000000 1308.000000 mean 224.196483 0.467611 std 67.826585 0.306078 min 36.000000 0.000616 25% 176.000000 0.198455 50% 228.000000 0.421708 75% 275.000000 0.743527 max 417.000000 1.000000 Integrated pval (PBRM1-BAP1) Integrated diff (PBRM1-BAP1) \ count 1.308000e+03 1308.000000 mean 3.240647e-01 0.029891 std 3.087643e-01 0.228001 min 8.310592e-07 -0.847713 25% 5.097919e-02 -0.119488 50% 2.134333e-01 0.038980 75% 5.582139e-01 0.183209 max 1.000000e+00 1.028562 Integrated mean (BAP1) Integrated mean (PBRM1) count 1308.000000 1308.000000 mean 0.549556 0.579446 std 0.995770 0.990930 min -0.892479 -0.917921 25% -0.173007 -0.130976 50% 0.227393 0.234948 75% 1.427497 1.461438 max 3.622638 3.594970 -------------------------------------------------------------------------------- MDE_TMDS Integrated mean (BAP1): NOT normally distributed MDE_TMDS Integrated mean (PBRM1): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 33 vs Cond0: 13 mannwhitneyu stat (PBRM1-BAP1) Integrated padj (PBRM1-BAP1) \ count 131.000000 131.000000 mean 214.641221 0.481823 std 70.271350 0.338775 min 48.000000 0.005470 25% 169.500000 0.153554 50% 215.000000 0.460356 75% 267.500000 0.764419 max 368.000000 1.000000 Integrated pval (PBRM1-BAP1) Integrated diff (PBRM1-BAP1) \ count 131.000000 131.000000 mean 0.342531 -0.026057 std 0.329060 0.449144 min 0.000051 -2.036792 25% 0.039276 -0.222388 50% 0.231935 0.016151 75% 0.574843 0.258593 max 1.000000 1.023557 Integrated mean (BAP1) Integrated mean (PBRM1) count 131.000000 131.000000 mean 0.038725 0.012669 std 0.639144 0.613803 min -1.835036 -1.738074 25% -0.281083 -0.365748 50% 0.081625 0.066338 75% 0.486612 0.383143 max 1.636786 1.238371 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Summary Cond1: 33 vs Cond0: 13 mannwhitneyu stat (PBRM1-BAP1) Integrated padj (PBRM1-BAP1) \ count 463.000000 463.000000 mean 222.177106 0.649914 std 57.680818 0.312156 min 58.000000 0.029255 25% 187.500000 0.384387 50% 221.000000 0.728712 75% 258.500000 0.960587 max 377.000000 1.000000 Integrated pval (PBRM1-BAP1) Integrated diff (PBRM1-BAP1) \ count 463.000000 463.000000 mean 0.417797 0.021734 std 0.328866 0.250007 min 0.000077 -0.721660 25% 0.097135 -0.122931 50% 0.366717 0.018379 75% 0.732697 0.136030 max 1.000000 0.899689 Integrated mean (BAP1) Integrated mean (PBRM1) count 463.000000 463.000000 mean -0.014635 0.007099 std 0.796475 0.807312 min -1.865031 -1.713511 25% -0.566146 -0.540847 50% -0.219106 -0.191867 75% 0.216450 0.193497 max 2.058091 2.046231 -------------------------------------------------------------------------------- MDS_TMDE Integrated mean (BAP1): NOT normally distributed MDS_TMDE Integrated mean (PBRM1): NOT normally distributed -------------------------------------------------------------------------------- S4 vs S1 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Summary Cond1: 10 vs Cond0: 45 mannwhitneyu stat (Stage IV-Stage I) \ count 1420.000000 mean 226.879577 std 71.709177 min 48.000000 25% 176.750000 50% 228.500000 75% 279.000000 max 415.000000 Integrated padj (Stage IV-Stage I) Integrated pval (Stage IV-Stage I) \ count 1420.000000 1420.000000 mean 0.517078 0.346292 std 0.295839 0.303793 min 0.028431 0.000035 25% 0.266248 0.068437 50% 0.536390 0.270462 75% 0.780280 0.592903 max 1.000000 1.000000 Integrated diff (Stage IV-Stage I) Integrated mean (Stage I) \ count 1420.000000 1420.000000 mean 0.002717 0.052995 std 0.277265 0.746992 min -1.028620 -1.813484 25% -0.161417 -0.374718 50% 0.004754 -0.066306 75% 0.170749 0.230399 max 0.793423 2.007147 Integrated mean (Stage IV) count 1420.000000 mean 0.055712 std 0.702168 min -1.797110 25% -0.381629 50% -0.077396 75% 0.198627 max 2.030891 -------------------------------------------------------------------------------- TPDS_TMDE Integrated mean (Stage I): NOT normally distributed TPDS_TMDE Integrated mean (Stage IV): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 10 vs Cond0: 45 mannwhitneyu stat (Stage IV-Stage I) \ count 1069.000000 mean 233.931712 std 76.340149 min 48.000000 25% 175.000000 50% 235.000000 75% 290.000000 max 434.000000 Integrated padj (Stage IV-Stage I) Integrated pval (Stage IV-Stage I) \ count 1069.000000 1069.000000 mean 0.456846 0.319378 std 0.309729 0.307709 min 0.005739 0.000005 25% 0.164804 0.041317 50% 0.418745 0.209568 75% 0.748668 0.563077 max 1.000000 1.000000 Integrated diff (Stage IV-Stage I) Integrated mean (Stage I) \ count 1069.000000 1069.000000 mean 0.018361 -0.163351 std 0.231087 0.836972 min -0.766239 -1.344041 25% -0.105226 -0.818052 50% 0.027279 -0.436337 75% 0.153386 0.823151 max 0.747891 1.684624 Integrated mean (Stage IV) count 1069.000000 mean -0.144990 std 0.838504 min -1.322394 25% -0.802781 50% -0.453402 75% 0.815986 max 1.757009 -------------------------------------------------------------------------------- TPDE_TMDS Integrated mean (Stage I): NOT normally distributed TPDE_TMDS Integrated mean (Stage IV): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 10 vs Cond0: 45 mannwhitneyu stat (Stage IV-Stage I) \ count 313.000000 mean 224.939297 std 74.703170 min 52.000000 25% 168.000000 50% 224.000000 75% 277.000000 max 390.000000 Integrated padj (Stage IV-Stage I) Integrated pval (Stage IV-Stage I) \ count 313.000000 313.000000 mean 0.475801 0.329674 std 0.309408 0.310695 min 0.031321 0.000167 25% 0.217560 0.056210 50% 0.450268 0.225854 75% 0.766451 0.577899 max 0.991295 0.991295 Integrated diff (Stage IV-Stage I) Integrated mean (Stage I) \ count 313.000000 313.000000 mean 0.009151 0.040503 std 0.414075 0.523195 min -1.213489 -1.946036 25% -0.271211 -0.272569 50% 0.004742 0.114310 75% 0.295807 0.416697 max 1.026332 1.070422 Integrated mean (Stage IV) count 313.000000 mean 0.049654 std 0.589176 min -1.670327 25% -0.406809 50% 0.084735 75% 0.508628 max 1.350353 -------------------------------------------------------------------------------- TMDE Integrated mean (Stage I): NOT normally distributed TMDE Integrated mean (Stage IV): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 10 vs Cond0: 45 mannwhitneyu stat (Stage IV-Stage I) \ count 803.000000 mean 264.325031 std 72.127279 min 26.000000 25% 213.500000 50% 273.000000 75% 319.500000 max 407.000000 Integrated padj (Stage IV-Stage I) Integrated pval (Stage IV-Stage I) \ count 803.000000 803.000000 mean 0.379887 0.276214 std 0.300685 0.293534 min 0.011885 0.000015 25% 0.104845 0.026766 50% 0.288801 0.146738 75% 0.633648 0.478195 max 1.000000 1.000000 Integrated diff (Stage IV-Stage I) Integrated mean (Stage I) \ count 803.000000 803.000000 mean 0.150585 -0.098934 std 0.439283 0.661758 min -1.400211 -1.670519 25% -0.079990 -0.558005 50% 0.195591 -0.150044 75% 0.453088 0.283065 max 1.540403 2.222142 Integrated mean (Stage IV) count 803.000000 mean 0.051651 std 0.755580 min -2.059430 25% -0.498856 50% 0.015582 75% 0.557861 max 2.406906 -------------------------------------------------------------------------------- TMDS Integrated mean (Stage I): NOT normally distributed TMDS Integrated mean (Stage IV): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 10 vs Cond0: 45 mannwhitneyu stat (Stage IV-Stage I) \ count 539.000000 mean 243.410019 std 76.983274 min 35.000000 25% 185.000000 50% 243.000000 75% 301.000000 max 434.000000 Integrated padj (Stage IV-Stage I) Integrated pval (Stage IV-Stage I) \ count 539.000000 539.000000 mean 0.451343 0.319258 std 0.318804 0.311294 min 0.002894 0.000005 25% 0.125234 0.031599 50% 0.431203 0.217601 75% 0.743869 0.563077 max 1.000000 1.000000 Integrated diff (Stage IV-Stage I) Integrated mean (Stage I) \ count 539.000000 539.000000 mean 0.097568 0.029103 std 0.650350 0.707442 min -1.756362 -2.393419 25% -0.315861 -0.396441 50% 0.090446 0.086172 75% 0.526084 0.546539 max 2.348416 1.727148 Integrated mean (Stage IV) count 539.000000 mean 0.126671 std 0.659368 min -1.920737 25% -0.261310 50% 0.132369 75% 0.560335 max 2.173560 -------------------------------------------------------------------------------- TPDS Integrated mean (Stage I): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 10 vs Cond0: 45 mannwhitneyu stat (Stage IV-Stage I) \ count 415.000000 mean 242.698795 std 68.073691 min 48.000000 25% 203.000000 50% 242.000000 75% 295.500000 max 396.000000 Integrated padj (Stage IV-Stage I) Integrated pval (Stage IV-Stage I) \ count 415.000000 415.000000 mean 0.557452 0.375550 std 0.327268 0.328739 min 0.033074 0.000117 25% 0.250505 0.065192 50% 0.592764 0.299953 75% 0.883297 0.670454 max 1.000000 1.000000 Integrated diff (Stage IV-Stage I) Integrated mean (Stage I) \ count 415.000000 415.000000 mean -0.100960 -0.091979 std 0.371756 0.379639 min -1.265367 -1.499038 25% -0.338354 -0.298234 50% -0.087780 -0.054614 75% 0.113342 0.148468 max 1.504833 1.065135 Integrated mean (Stage IV) count 415.000000 mean -0.192938 std 0.413432 min -1.632167 25% -0.446952 50% -0.172830 75% 0.066966 max 1.084019 -------------------------------------------------------------------------------- MDE Integrated mean (Stage I): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 10 vs Cond0: 45 mannwhitneyu stat (Stage IV-Stage I) \ count 257.000000 mean 211.101167 std 78.029726 min 46.000000 25% 156.000000 50% 212.000000 75% 263.000000 max 388.000000 Integrated padj (Stage IV-Stage I) Integrated pval (Stage IV-Stage I) \ count 257.000000 257.000000 mean 0.457742 0.326464 std 0.332162 0.316661 min 0.010055 0.000098 25% 0.123045 0.031599 50% 0.433516 0.217601 75% 0.789513 0.592903 max 1.000000 1.000000 Integrated diff (Stage IV-Stage I) Integrated mean (Stage I) \ count 257.000000 257.000000 mean -0.085753 -0.029664 std 0.516294 0.471243 min -1.440475 -1.615232 25% -0.410730 -0.269684 50% -0.030469 -0.011915 75% 0.213879 0.265253 max 1.208606 1.332875 Integrated mean (Stage IV) count 257.000000 mean -0.115417 std 0.496198 min -1.581586 25% -0.453445 50% -0.066505 75% 0.245156 max 1.092725 -------------------------------------------------------------------------------- TPDE Integrated mean (Stage I): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 10 vs Cond0: 45 mannwhitneyu stat (Stage IV-Stage I) \ count 1308.000000 mean 229.801223 std 76.518018 min 28.000000 25% 179.000000 50% 232.000000 75% 286.000000 max 416.000000 Integrated padj (Stage IV-Stage I) Integrated pval (Stage IV-Stage I) \ count 1308.000000 1308.000000 mean 0.490236 0.339809 std 0.320967 0.313715 min 0.007520 0.000018 25% 0.189651 0.048283 50% 0.498549 0.251943 75% 0.786529 0.592903 max 1.000000 1.000000 Integrated diff (Stage IV-Stage I) Integrated mean (Stage I) \ count 1308.000000 1308.000000 mean 0.013684 0.577703 std 0.271272 0.992113 min -0.862521 -0.938056 25% -0.147468 -0.152384 50% 0.011868 0.244758 75% 0.183795 1.494527 max 1.007886 3.572372 Integrated mean (Stage IV) count 1308.000000 mean 0.591386 std 1.038351 min -0.837347 25% -0.128703 50% 0.206461 75% 1.492658 max 3.636135 -------------------------------------------------------------------------------- MDE_TMDS Integrated mean (Stage I): NOT normally distributed MDE_TMDS Integrated mean (Stage IV): NOT normally distributed -------------------------------------------------------------------------------- Summary Cond1: 10 vs Cond0: 45 mannwhitneyu stat (Stage IV-Stage I) \ count 131.000000 mean 189.206107 std 72.628636 min 16.000000 25% 134.500000 50% 181.000000 75% 234.000000 max 387.000000 Integrated padj (Stage IV-Stage I) Integrated pval (Stage IV-Stage I) \ count 131.000000 131.000000 mean 0.412236 0.299179 std 0.321507 0.315091 min 0.000703 0.000005 25% 0.113796 0.029106 50% 0.329174 0.165844 75% 0.636040 0.478300 max 1.000000 1.000000 Integrated diff (Stage IV-Stage I) Integrated mean (Stage I) \ count 131.000000 131.000000 mean -0.262702 0.147673 std 0.473466 0.622853 min -1.625160 -1.621239 25% -0.594743 -0.172941 50% -0.263300 0.171570 75% 0.060156 0.550868 max 1.131278 1.392005 Integrated mean (Stage IV) count 131.000000 mean -0.115029 std 0.514944 min -1.635124 25% -0.399274 50% -0.089361 75% 0.190053 max 1.092992 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Summary Cond1: 10 vs Cond0: 45 mannwhitneyu stat (Stage IV-Stage I) \ count 463.000000 mean 188.365011 std 70.457923 min 9.000000 25% 135.000000 50% 186.000000 75% 238.500000 max 398.000000 Integrated padj (Stage IV-Stage I) Integrated pval (Stage IV-Stage I) \ count 463.000000 463.000000 mean 0.431394 0.306698 std 0.310910 0.303573 min 0.001189 0.000003 25% 0.148533 0.038177 50% 0.387465 0.194151 75% 0.719006 0.541217 max 1.000000 1.000000 Integrated diff (Stage IV-Stage I) Integrated mean (Stage I) \ count 463.000000 463.000000 mean -0.206640 0.122165 std 0.327343 0.747753 min -1.526980 -1.700895 25% -0.400839 -0.351986 50% -0.176619 -0.054734 75% 0.018289 0.254284 max 0.792915 2.052425 Integrated mean (Stage IV) count 463.000000 mean -0.084475 std 0.843808 min -1.813267 25% -0.628469 50% -0.292154 75% 0.093517 max 2.085422 -------------------------------------------------------------------------------- MDS_TMDE Integrated mean (Stage I): NOT normally distributed MDS_TMDE Integrated mean (Stage IV): NOT normally distributed
Out[8]:
| id | mannwhitneyu stat (Stage IV-Stage I) | Integrated padj (Stage IV-Stage I) | Integrated pval (Stage IV-Stage I) | Integrated diff (Stage IV-Stage I) | Integrated mean (Stage I) | Integrated mean (Stage IV) | Stage I_C3L.01352 | Stage I_C3L.01836 | Stage I_C3N.01261 | ... | Regulation_Grouping_2 | Protein-LogFC mean (Stage IV) | Protein-LogFC mean (Stage I) | Protein-LogFC mean (Stage IV-Stage I) | RNA-LogFC mean (Stage IV) | RNA-LogFC mean (Stage I) | RNA-LogFC mean (Stage IV-Stage I) | CpG-LogFC mean (Stage IV) | CpG-LogFC mean (Stage I) | CpG-LogFC mean (Stage IV-Stage I) | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 0 | ENSG00000000005 | 190.0 | 0.695429 | 0.451539 | -0.073670 | 0.125192 | 0.051522 | 0.379473 | 0.324155 | -0.044577 | ... | TPDS_TMDE | 0.000000 | 0.000000 | 0.000000 | -0.821786 | -0.617844 | -0.203942 | -0.434079 | -0.305547 | -0.128532 |
| 1 | ENSG00000003096 | 226.0 | 0.995501 | 0.991295 | -0.005227 | 1.350647 | 1.345420 | 1.264048 | 1.396797 | 1.356239 | ... | TPDS_TMDE | -0.417617 | -0.283684 | -0.133933 | -2.241165 | -2.058036 | -0.183129 | -0.067677 | -0.079235 | 0.011559 |
| 2 | ENSG00000004939 | 119.0 | 0.142160 | 0.021324 | -0.189416 | 1.255321 | 1.065905 | 1.065281 | 1.134694 | 1.345614 | ... | TPDS_TMDE | 1.394054 | 1.466043 | -0.071989 | -5.000432 | -5.672828 | 0.672396 | -0.141396 | -0.121519 | -0.019877 |
| 3 | ENSG00000005001 | 137.0 | 0.238975 | 0.056210 | -0.302341 | -0.638235 | -0.940576 | -0.788824 | -0.499663 | -0.610327 | ... | TPDS_TMDE | 0.000000 | 0.000000 | 0.000000 | -2.522605 | -1.952379 | -0.570226 | -0.168012 | -0.157581 | -0.010431 |
| 4 | ENSG00000006071 | 256.0 | 0.733482 | 0.505689 | 0.062979 | -0.167911 | -0.104932 | 0.432397 | -0.208250 | 0.374605 | ... | TPDS_TMDE | 0.000000 | 0.000000 | 0.000000 | -0.294600 | -0.492712 | 0.198112 | -0.096770 | -0.145593 | 0.048824 |
| ... | ... | ... | ... | ... | ... | ... | ... | ... | ... | ... | ... | ... | ... | ... | ... | ... | ... | ... | ... | ... | ... |
| 458 | ENSG00000273045 | 339.0 | 0.078696 | 0.013258 | 0.314148 | 1.160627 | 1.474775 | 1.130754 | 0.924780 | 1.098500 | ... | MDS_TMDE | -0.261270 | -0.321215 | 0.059944 | -0.859941 | -0.989851 | 0.129910 | 0.219305 | 0.150133 | 0.069172 |
| 459 | ENSG00000273274 | 168.0 | 0.412908 | 0.217601 | -0.280006 | 0.030177 | -0.249829 | 0.161288 | 0.213268 | -0.401922 | ... | MDS_TMDE | 0.000000 | 0.000000 | 0.000000 | -0.208227 | -0.450848 | 0.242621 | 0.169898 | 0.066255 | 0.103642 |
| 460 | ENSG00000273328 | 187.0 | 0.617099 | 0.413176 | -0.159038 | -0.164170 | -0.323208 | 0.047819 | -0.272623 | 0.125869 | ... | MDS_TMDE | 0.000000 | 0.000000 | 0.000000 | -0.739841 | -0.769299 | 0.029459 | 0.232026 | 0.166405 | 0.065622 |
| 461 | ENSG00000277893 | 201.0 | 0.769241 | 0.608083 | -0.061593 | -0.515018 | -0.576611 | 0.401482 | -0.959410 | -0.931824 | ... | MDS_TMDE | 0.000000 | 0.000000 | 0.000000 | -0.350238 | -0.963343 | 0.613105 | 0.297978 | 0.173261 | 0.124717 |
| 462 | ENSG00000278535 | 115.0 | 0.087772 | 0.016872 | -0.325118 | 0.134856 | -0.190262 | -0.339662 | 0.509200 | -0.036737 | ... | MDS_TMDE | 0.000000 | 0.000000 | 0.000000 | -1.764170 | -1.722344 | -0.041827 | 0.138939 | 0.084016 | 0.054923 |
6718 rows × 72 columns
Compile statistics information and compute GSEA for each comparison¶
In [9]:
import os
from scipy import stats
from tqdm import tqdm
from scipy.stats import combine_pvalues
save_df = True
files = os.listdir(stats_vae_dir)
stats_files = [f for f in files if 'stats' in f]
rcm_labels = ["MDS", "MDS_TMDE", "MDE", "MDE_TMDS", "TMDE", "TMDS", "TPDE", "TPDE_TMDS", "TPDS", "TPDS_TMDE"]
stats_summary = [] # rows
summary_df = pd.DataFrame(columns=['Regulatory_cluster'])
# Go Through both
comparisons = ['old-young', 'PBRM1-BAP1', 'Stage IV-Stage I']
vae_rcm_df = meta_rcm_df.copy() # Make a copy that we'll add to
for comp in comparisons:
all_dfs = pd.DataFrame()
cond0 = comp.split('-')[1]
cond1 = comp.split('-')[0]
tag = f'{cond1}-{cond0}'
for f in tqdm(stats_files):
if label in f and cond0 in f and cond1 in f and 'stats' in f:
df = pd.read_csv(f'{stats_vae_dir}{f}', index_col=0)
df.set_index('id', inplace=True)
df_merged = df.join(vae_rcm_df, how='left', lsuffix='_') # Join to the
# Map gene names and move folder
df_merged = df_merged[['external_gene_name',
'Regulation_Grouping_2',
f'Integrated padj ({cond1}-{cond0})',
f'Integrated pval ({cond1}-{cond0})',
f'Integrated diff ({cond1}-{cond0})',
f'mannwhitneyu stat ({cond1}-{cond0})',
f'Integrated mean ({cond0})',
f'Integrated mean ({cond1})',
f'Protein-LogFC mean ({cond1}-{cond0})',
f'RNA-LogFC mean ({cond1}-{cond0})',
f'CpG-LogFC mean ({cond1}-{cond0})',
'hgnc_symbol',
'entrezgene_id',
'logFC_rna',
'padj_rna',
'CpG_Beta_diff',
'padj_meth',
'logFC_protein',
'padj_protein']] # Reorder columns
df_merged.to_csv(f'{stats_output_dir}{missing_method}_Integrated_comparison_{cond1}-{cond0}.csv')
for c in df_merged.columns:
if 'Integrated diff' in c or 'Integrated padj' in c or 'mean' in c:
vae_rcm_df.loc[df_merged.index.values, c] = df_merged[c].values
100%|█| 8/8 [00:00<00:00, 28 100%|█| 8/8 [00:00<00:00, 34 100%|█| 8/8 [00:00<00:00, 35
Plot the correlations as a QC to ensure it is logical/interpretable¶
In [10]:
diff_df = vae_rcm_df[[c for c in vae_rcm_df if ' diff' in c or 'LogFC' in c]]
corr = diff_df.corr()
sns.clustermap(corr,
xticklabels=corr.columns.values,
yticklabels=corr.columns.values, cmap='RdBu_r', row_cluster=True, col_cluster=True)
if save_fig:
plt.savefig(f'{stats_fig_dir}{missing_method}_VAE_data_corr.svg', transparent=True)
Check decoding of some of the top genes¶
Again, check everything has been learnt "correctly" by ensuring the decoding looks like the input somewhat
In [11]:
from sciviso import Scatterplot
import matplotlib.pyplot as plt
rcm_labels = ["MDS", "TPDS", "TMDS",
"MDE", "TPDE", "TMDE",
"MDS_TMDE", "MDE_TMDS", "TPDE_TMDS", "TPDS_TMDE"]
p_cutoff = 0.05
for comparison in comparisons:
fig, axs = plt.subplots(10, 3, figsize=(6,21))
vae_change = f'Integrated diff ({comparison})'
vae_p = f'Integrated padj ({comparison})'
protein_change = f'Protein-LogFC mean ({comparison})'
rna_change = f'RNA-LogFC mean ({comparison})'
cpg_change = f'CpG-LogFC mean ({comparison})'
for fi, r in enumerate(rcm_labels):
tmp_df = vae_rcm_df[vae_rcm_df['Regulation_Grouping_2'] == r]
opts = {'title_font_weight': 'bold', "title_font_size":9, "label_font_size":7, "figsize": (6, 9), "s": 20}
corr_c = round(np.corrcoef(tmp_df[vae_change], tmp_df[cpg_change])[0][1], 2)
scatter = Scatterplot(tmp_df, vae_change, cpg_change,
title_font_weight="bold",
colour='orange', config=opts)
grp_labels = ['Integrated']
vae_sig = []
vae_int_change = abs(tmp_df[vae_change].values)
vae_cutoff = 0.5
for i, vae_padj in enumerate(tmp_df[vae_p].values):
if (vae_padj < p_cutoff and vae_int_change[i] > vae_cutoff):
vae_sig.append(i)
grp_idxs = [vae_sig]
print(r, len(vae_sig)/len(tmp_df))
ax = scatter.plot_groups_2D(axs[fi][0], grp_labels, grp_idxs, ['orange'])
corr_r = round(np.corrcoef(tmp_df[vae_change], tmp_df[rna_change])[0][1], 2)
scatter = Scatterplot(tmp_df, vae_change, rna_change, colour='rebeccapurple',
xlabel='Integrated Rank (Stage 4 - Stage 1)',
config=opts)
ax = scatter.plot_groups_2D(axs[fi][1], grp_labels, grp_idxs, ['orange', 'rebeccapurple', 'darkred'])
corr_p = round(np.corrcoef(tmp_df[vae_change], tmp_df[protein_change])[0][1], 2)
scatter = Scatterplot(tmp_df, vae_change, protein_change, colour='grey',
config=opts)
ax = scatter.plot_groups_2D(axs[fi][2], grp_labels, grp_idxs, ['orange', 'rebeccapurple', 'darkred'])
plt.tight_layout()
axs[fi][0].set_title(f'CpG ({corr_c})', fontweight="bold")
axs[fi][1].set_title(f'{r} \n \n RNA ({corr_r})', fontweight="bold")
axs[fi][2].set_title(f'Protein ({corr_p})', fontweight="bold")
axs[fi][0].set(xlabel='Integrated diff', ylabel='CpG diff')
axs[fi][1].set(xlabel='Integrated diff', ylabel='RNA LogFC')
axs[fi][2].set(xlabel='Integrated diff', ylabel='Protein LogFC')
if save_fig:
plt.savefig(f'{stats_fig_dir}{missing_method}_VAE_data_corr_{comparison}_change.svg', transparent=True)
plt.show()
MDS 0.0 TPDS 0.0 TMDS 0.037359900373599 MDE 0.0 TPDE 0.019455252918287938 TMDE 0.0 MDS_TMDE 0.0 MDE_TMDS 0.0 TPDE_TMDS 0.0 TPDS_TMDE 0.0
MDS 0.09923664122137404 TPDS 0.09461966604823747 TMDS 0.05977584059775841 MDE 0.04819277108433735 TPDE 0.11673151750972763 TMDE 0.0670926517571885 MDS_TMDE 0.01511879049676026 MDE_TMDS 0.02522935779816514 TPDE_TMDS 0.02432179607109448 TPDS_TMDE 0.015492957746478873
MDS 0.06870229007633588 TPDS 0.10946196660482375 TMDS 0.10585305105853052 MDE 0.05060240963855422 TPDE 0.14396887159533073 TMDE 0.07348242811501597 MDS_TMDE 0.09071274298056156 MDE_TMDS 0.052752293577981654 TPDE_TMDS 0.025257249766136577 TPDS_TMDE 0.03169014084507042
In [12]:
from sciviso import Scatterplot
import matplotlib.pyplot as plt
rcm_labels = ["MDS", "TPDS", "TMDS",
"MDE", "TPDE", "TMDE",
"MDS_TMDE", "MDE_TMDS", "TPDE_TMDS", "TPDS_TMDE"]
p_cutoff = 0.05
for comparison in comparisons:
fig, axs = plt.subplots(10, 2, figsize=(4,24))
cond0 = comparison.split('-')[1]
cond1 = comparison.split('-')[0]
vae_change = f'Integrated mean ({cond0})'
for fi, r in enumerate(rcm_labels):
tmp_df = vae_rcm_df[vae_rcm_df['Regulation_Grouping_2'] == r]
axs[fi][0].hist(tmp_df[f'Integrated diff ({comparison})'], color='orange')
axs[fi][1].hist(tmp_df[f'Integrated mean ({cond0})'], color='blue', alpha=0.2)
axs[fi][1].hist(tmp_df[f'Integrated mean ({cond1})'], color='red', alpha=0.2)
axs[fi][1].set_title(r)
if save_fig:
plt.savefig(f'{stats_fig_dir}{missing_method}_VAE_hists_{comparison}_change.svg', transparent=True)
plt.show()
In [13]:
# get the gene ids that we're interested in visualising
#from sciviso import Heatmap
import scipy.spatial as sp, scipy.cluster.hierarchy as hc
r = 'MDS'
cond1 = 'Stage IV'
cond0 = 'Stage I'
comparison = f'{cond1}-{cond0}'
vae_diff = f'Integrated diff ({comparison})'
vae_padj = f'Integrated padj ({comparison})'
protein_change = f'Protein-LogFC mean ({comparison})'
rna_change = f'RNA-LogFC mean ({comparison})'
cpg_change = f'CpG-LogFC mean ({comparison})'
# Read in the precomputed encoding and decoding dfs
decoding_df = sv.get_decoding(r)
training_df = sv.vae_input_df[r] # Get the input DF
r_df = pd.read_csv(f'{stats_output_dir}{label}_Integrated_comparison_{cond1}-{cond0}.csv')
r_df = r_df[r_df['Regulation_Grouping_2'] == r]
training_df
# Get the highest 5 pvalues as a control
worst_gene_ids = r_df.nlargest(10, vae_padj)['id'].values
row_colours = ['black'] * len(worst_gene_ids)
# Get the nlargest and nsmallest values from the integrated value
r_df = r_df[r_df[vae_padj] <= 0.05]
# Get the top and bottom
r_df = r_df[abs(r_df[vae_diff]) > 0.5]
top_gene_ids = list(r_df[r_df[vae_diff] > 0]['id'].values)
top_gene_ids += list(r_df[r_df[vae_diff] < 0]['id'].values)
gene_colour = {}
for g in list(r_df[r_df[vae_diff] < 0]['id'].values):
gene_colour[g] = 'purple'
for g in list(r_df[r_df[vae_diff] > 0]['id'].values):
gene_colour[g] = 'yellow'
for g in worst_gene_ids:
gene_colour[g] = 'white'
top_gene_ids += list(worst_gene_ids)
# Now we want to plot the top and bottom genes
# Plot genes from both
# Get top genes by encoding
feature_columns = ['Protein', 'RNA', 'CpG']
training_df = training_df.join(vae_rcm_df, how='left', lsuffix='_', rsuffix='_r')
plot_df = training_df[training_df.index.isin(top_gene_ids)]
decoding_df.set_index('id', inplace=True)
# Do the same for decoding
decoding_df = decoding_df.join(vae_rcm_df, how='left', lsuffix='_', rsuffix='_r')
plot_dec_df = decoding_df[decoding_df.index.isin(top_gene_ids)]
row_colours = []
for g in plot_dec_df.index.values:
row_colours.append(gene_colour.get(g))
fig_size = (8, 10)
vis_opts = {"figsize": fig_size, "title_font_size": 12, "axis_font_size": 10}
5/5 [==============================] - 0s 937us/step 5/5 [==============================] - 0s 834us/step 5/5 [==============================] - 0s 884us/step 5/5 [==============================] - 0s 831us/step 5/5 [==============================] - 0s 824us/step 5/5 [==============================] - 0s 810us/step 5/5 [==============================] - 0s 845us/step 5/5 [==============================] - 0s 861us/step 5/5 [==============================] - 0s 849us/step 5/5 [==============================] - 0s 858us/step 5/5 [==============================] - 0s 822us/step 5/5 [==============================] - 0s 851us/step 5/5 [==============================] - 0s 817us/step 5/5 [==============================] - 0s 849us/step 5/5 [==============================] - 0s 845us/step 5/5 [==============================] - 0s 864us/step 5/5 [==============================] - 0s 845us/step 5/5 [==============================] - 0s 984us/step 5/5 [==============================] - 0s 861us/step 5/5 [==============================] - 0s 830us/step 5/5 [==============================] - 0s 853us/step 5/5 [==============================] - 0s 831us/step 5/5 [==============================] - 0s 808us/step 5/5 [==============================] - 0s 818us/step 5/5 [==============================] - 0s 849us/step 5/5 [==============================] - 0s 852us/step 5/5 [==============================] - 0s 826us/step 5/5 [==============================] - 0s 811us/step 5/5 [==============================] - 0s 829us/step 5/5 [==============================] - 0s 812us/step 5/5 [==============================] - 0s 890us/step 5/5 [==============================] - 0s 828us/step 5/5 [==============================] - 0s 850us/step 5/5 [==============================] - 0s 844us/step 5/5 [==============================] - 0s 835us/step 5/5 [==============================] - 0s 813us/step 5/5 [==============================] - 0s 823us/step 5/5 [==============================] - 0s 853us/step 5/5 [==============================] - 0s 932us/step 5/5 [==============================] - 0s 898us/step 5/5 [==============================] - 0s 815us/step 5/5 [==============================] - 0s 823us/step 5/5 [==============================] - 0s 824us/step 5/5 [==============================] - 0s 844us/step 5/5 [==============================] - 0s 806us/step 5/5 [==============================] - 0s 827us/step 5/5 [==============================] - 0s 782us/step 5/5 [==============================] - 0s 836us/step 5/5 [==============================] - 0s 818us/step 5/5 [==============================] - 0s 823us/step 5/5 [==============================] - 0s 837us/step 5/5 [==============================] - 0s 821us/step 5/5 [==============================] - 0s 810us/step 5/5 [==============================] - 0s 805us/step 5/5 [==============================] - 0s 810us/step 5/5 [==============================] - 0s 840us/step 5/5 [==============================] - 0s 819us/step 5/5 [==============================] - 0s 814us/step 5/5 [==============================] - 0s 845us/step 5/5 [==============================] - 0s 846us/step 5/5 [==============================] - 0s 816us/step 5/5 [==============================] - 0s 821us/step 5/5 [==============================] - 0s 796us/step 5/5 [==============================] - 0s 793us/step 5/5 [==============================] - 0s 808us/step 5/5 [==============================] - 0s 859us/step 5/5 [==============================] - 0s 796us/step 5/5 [==============================] - 0s 783us/step 5/5 [==============================] - 0s 802us/step 5/5 [==============================] - 0s 810us/step 5/5 [==============================] - 0s 809us/step 5/5 [==============================] - 0s 855us/step 5/5 [==============================] - 0s 823us/step 5/5 [==============================] - 0s 814us/step 5/5 [==============================] - 0s 813us/step 5/5 [==============================] - 0s 818us/step 5/5 [==============================] - 0s 833us/step 5/5 [==============================] - 0s 839us/step 5/5 [==============================] - 0s 828us/step 5/5 [==============================] - 0s 808us/step 5/5 [==============================] - 0s 792us/step 5/5 [==============================] - 0s 809us/step 5/5 [==============================] - 0s 821us/step 5/5 [==============================] - 0s 815us/step 5/5 [==============================] - 0s 831us/step 5/5 [==============================] - 0s 821us/step 5/5 [==============================] - 0s 834us/step 5/5 [==============================] - 0s 804us/step 5/5 [==============================] - 0s 1ms/step 5/5 [==============================] - 0s 822us/step 5/5 [==============================] - 0s 823us/step 5/5 [==============================] - 0s 803us/step 5/5 [==============================] - 0s 859us/step 5/5 [==============================] - 0s 820us/step
Validation and supplemental figures.¶
We want to do some validation and QC plots for each of the comparisons.
- Correlation heatmap with VAE results and the raw data. (across all clusters)
- Correlation scatterplot of the VAE compared with the main logFC. (for specific clusters)
- boxplots for the top an dbottmo 5 genes within each cluster (coloured by the patient features)
In [14]:
cond0_cases = list(patient_info[patient_info['TumorStage'] == cond0]['SafeCases'].values)
cond1_cases = list(patient_info[patient_info['TumorStage'] == cond1]['SafeCases'].values)
In [15]:
from sciviso import Heatmap
# get the genes that chanegd the mosy between
for f in feature_columns:
try:
s1_f_cols = [c for c in training_df.columns if f in c and 'Normal' in c and c.split('_')[0] in cond0_cases]
s4_f_cols = [c for c in training_df.columns if f in c and 'Normal' in c and c.split('_')[0] in cond1_cases]
s1_f_cols_t = [c for c in training_df.columns if f in c and 'Tumor' in c and c.split('_')[0] in cond0_cases]
s4_f_cols_t = [c for c in training_df.columns if f in c and 'Tumor' in c and c.split('_')[0] in cond1_cases]
column_colours_TN = ['blue'] * len(s1_f_cols) + ['orange'] * len(s1_f_cols_t) + ['cyan'] * len(s4_f_cols) + ['red'] * len(s4_f_cols_t)
s1_f_cols = s1_f_cols + s1_f_cols_t
s4_f_cols = s4_f_cols + s4_f_cols_t
train_columns = s1_f_cols + s4_f_cols
train_columns = [c for c in train_columns if c in plot_dec_df.columns]
column_colours = ['green'] * len(s1_f_cols) + ['pink'] * len(s4_f_cols)
# Combine the two dfs
# Pre compute the distance
vals = plot_df[train_columns]
if len(vals) > 0:
row_linkage, col_linkage = (hc.linkage(sp.distance.pdist(x), method='average')
for x in (vals.values, vals.values.T))
hm = Heatmap(plot_df, row_index='hgnc_symbol',
chart_columns=train_columns, #cluster_cols=False, cluster_rows=False,
col_colours=[column_colours, column_colours_TN], row_colours=[row_colours],
config=vis_opts, title=f'{r} {f} training')
hm.axis_line_width = 1.0
hm.plot(row_linkage=row_linkage, col_linkage=col_linkage)
plt.show()
hm = Heatmap(plot_dec_df, row_index='hgnc_symbol',
col_colours=[column_colours, column_colours_TN], row_colours=[row_colours],
chart_columns=train_columns, #cluster_cols=False,cluster_rows=False,
config=vis_opts, title=f'{r} {f} decoding')
hm.axis_line_width = 1.0
hm.plot(row_linkage=row_linkage, col_linkage=col_linkage)
plt.show()
except:
print(f)
CpG
In [16]:
f = 'CpG'
train_columns = [c for c in training_df.columns if '_CpG-LogFC' in c] #s1_f_cols + s4_f_cols
train_columns = [c for c in train_columns if c in plot_dec_df.columns]
# Combine the two dfs
# Pre compute the distance
vals = plot_df[train_columns]
if len(vals) > 0:
row_linkage, col_linkage = (hc.linkage(sp.distance.pdist(x), method='average')
for x in (vals.values, vals.values.T))
hm = Heatmap(plot_df, row_index='hgnc_symbol',
chart_columns=train_columns, #cluster_cols=False, cluster_rows=False,
col_colours=[column_colours, column_colours_TN], row_colours=[row_colours],
config=vis_opts, title=f'{r} {f} training')
hm.axis_line_width = 1.0
hm.plot(row_linkage=row_linkage, col_linkage=col_linkage)
plt.show()
hm = Heatmap(plot_dec_df, row_index='hgnc_symbol',
col_colours=[column_colours, column_colours_TN], row_colours=[row_colours],
chart_columns=train_columns, #cluster_cols=False,cluster_rows=False,
config=vis_opts, title=f'{r} {f} decoding')
hm.axis_line_width = 1.0
hm.plot(row_linkage=row_linkage, col_linkage=col_linkage)
plt.show()
Plot some of the top genes in each group and colour by the¶
Do box plots of specific genes¶
In [17]:
ens_to_gene = dict(zip(vae_rcm_df.index.values, vae_rcm_df['external_gene_name'].values))
values = defaultdict(lambda: defaultdict(list))
for r in rcm_labels:
encoding_df = sv.encoded_df[r]
input_df = sv.raw_input_df[r] # Get the input DF
# Make a df for each of the data types we want box plots for
for column in input_df.columns:
if 'C' in column:
c = column.split('_')
values[c[1]]['values'] += [v for v in input_df[column].values]
values[c[1]]['GeneId'] += [v for v in input_df.index.values]
values[c[1]]['Cluster'] += [v for v in input_df['Regulation_Grouping_2'].values]
case_info = patient_info[patient_info['SafeCases'] == c[0]]
# Stage BAP1&PBRM1 gender TumorStage AgeGrouped
values[c[1]]['Gender'] += [case_info['gender'].values[0]] * len(input_df)
values[c[1]]['Stage'] += [case_info['Stage'].values[0]] * len(input_df)
values[c[1]]['Tumor Stage'] += [case_info['TumorStage'].values[0]] * len(input_df)
values[c[1]]['Age'] += [case_info['AgeGrouped'].values[0]] * len(input_df)
values[c[1]]['Mutation'] += [case_info['BAP1&PBRM1'].values[0]] * len(input_df)
# Now we also want an encoding values
for column in encoding_df.columns:
if 'C' in column:
values['Integrated']['values'] += [c for c in encoding_df[column].values]
values['Integrated']['GeneId'] += [c for c in encoding_df['id'].values]
values['Integrated']['Cluster'] += [v for v in encoding_df['Regulation_Grouping_2'].values]
case_info = patient_info[patient_info['SafeCases'] == column]
values['Integrated']['Gender'] += [case_info['gender'].values[0]] * len(encoding_df)
values['Integrated']['Stage'] += [case_info['Stage'].values[0]] * len(encoding_df)
values['Integrated']['Tumor Stage'] += [case_info['TumorStage'].values[0]] * len(encoding_df)
values['Integrated']['Age'] += [case_info['AgeGrouped'].values[0]] * len(encoding_df)
values['Integrated']['Mutation'] += [case_info['BAP1&PBRM1'].values[0]] * len(encoding_df)
In [18]:
# Just formatting the data for a boxplot
dfs = {}
for v in values:
print(v)
box_df = pd.DataFrame()
for c in values[v]:
box_df[c] = values[v][c]
dfs[v] = box_df
for d in dfs:
dfs[d].to_csv(f'{stats_base_dir}Boxplot_data_{d}.csv', index=False)
Protein-Normal Protein-Tumor Protein-LogFC RNA-Normal RNA-Tumor RNA-LogFC CpG-Normal CpG-Tumor CpG-LogFC Integrated
Plotting function for a gene across the data types¶
In [19]:
# Now we can iterate through each one and do whatever we need to do
plt.rcParams["figure.figsize"] = (12, 3)
plt.rcParams['svg.fonttype'] = 'none'
import os
from sciviso import Boxplot
fig_size = (12, 3)
vis_opts = {"figsize": fig_size, "title_font_size": 12, "axis_font_size": 10,
'palette': ['lightgrey', 'dimgrey']}
def plot_gene_logfcs(gene, cond0, cond1, x="Stage", cmap="Purples"):
fig, ax = plt.subplots(nrows=1, ncols=5)
gene_name = ens_to_gene.get(gene)
box_data_df = dfs['Integrated']
#try:
box_data_df = box_data_df[box_data_df[x].isin([cond0, cond1])]
gene_data = box_data_df[box_data_df['GeneId'] == gene]
b = Boxplot(gene_data, x=x, y="values", add_dots=True,
add_stats=True, title=f'Integrated diff.',
xlabel="Sample", ylabel=f'diff. {cond1}-{cond0}', config=vis_opts)
b.plot(ax=ax[0], legend=False)
#nt('Integrated')
box_data_df = dfs['Protein-LogFC']
try:
box_data_df = box_data_df[box_data_df[x].isin([cond0, cond1])]
gene_data = box_data_df[box_data_df['GeneId'] == gene]
b = Boxplot(gene_data, x=x, y="values", add_dots=True,
add_stats=True, title=f'Protein logFC',
xlabel="Sample", ylabel=f"Protein {cond1}-{cond0}", config=vis_opts)
b.plot(ax=ax[1])
except:
print('Protein logFC')
box_data_df = dfs['Protein-Tumor']
try:
box_data_df = box_data_df[box_data_df[x].isin([cond0, cond1])]
gene_data = box_data_df[box_data_df['GeneId'] == gene]
b = Boxplot(gene_data, x=x, y="values", add_dots=True,
add_stats=True, title=f'Protein Tumor',
xlabel="Sample", ylabel=f"Protein {cond1}-{cond0}", config=vis_opts)
b.plot(ax=ax[2])
except:
print('Protein')
box_data_df = dfs['RNA-LogFC']
try:
box_data_df = box_data_df[box_data_df[x].isin([cond0, cond1])]
gene_data = box_data_df[box_data_df['GeneId'] == gene]
b = Boxplot(gene_data, x=x, y="values", add_dots=True,
add_stats=True, title=f'RNA logFC',
xlabel="Sample", ylabel=f"RNA {cond1}-{cond0}", config=vis_opts)
b.plot(ax=ax[3])
except:
print('RNA')
box_data_df = dfs['CpG-LogFC']
try:
box_data_df = box_data_df[box_data_df[x].isin([cond0, cond1])]
gene_data = box_data_df[box_data_df['GeneId'] == gene]
b = Boxplot(gene_data, x=x, y="values", add_dots=True,
add_stats=True, title=f'CpG logFC',
xlabel="Sample", ylabel=f"CpG {cond1}-{cond0}", config=vis_opts)
b.plot(ax=ax[4])
except:
print('CpG')
# ALso print the URL so that I can quickly check the ones that look good in protein atlas
print(f'https://www.proteinatlas.org/{gene}-{gene_name}/pathology/renal+cancer/KIRC')
fig.suptitle(f'{gene_name} ({cond1}-{cond0})', fontsize=16, fontweight='bold')
fig.tight_layout()
fig.subplots_adjust(top=0.8)
if save_fig:
plt.savefig(f'{fig_dir}boxplot_{gene_name}_{cond1}-{cond0}.svg')
plt.show()
In [20]:
gene_to_ens = dict(zip(vae_rcm_df['external_gene_name'].values, vae_rcm_df.index.values))
ens_to_gene = dict(zip(vae_rcm_df.index.values, vae_rcm_df.external_gene_name.values))
for gene_name in ['FLT1', 'EPAS1', 'LGALS9', 'HIF1A', 'SLC3A1']:
plot_gene_logfcs(gene_to_ens[gene_name], 'BAP1', 'PBRM1', x='Mutation')
# Do the same for old and young
plot_gene_logfcs(gene_to_ens[gene_name], 'young', 'old', x='Age')
# And stage
plot_gene_logfcs(gene_to_ens[gene_name], 'Stage I', 'Stage IV', x='Tumor Stage')
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.311e-04 U_stat=7.700e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.158e-01 U_stat=1.840e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.082e-02 U_stat=1.490e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.956e-04 U_stat=7.900e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.850e-02 U_stat=3.250e+02 https://www.proteinatlas.org/ENSG00000102755-FLT1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.088e-01 U_stat=2.870e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.844e-01 U_stat=3.210e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.432e-01 U_stat=2.820e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.998e-01 U_stat=2.760e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.590e-01 U_stat=1.650e+02 https://www.proteinatlas.org/ENSG00000102755-FLT1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.132e-02 U_stat=3.310e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.715e-01 U_stat=3.480e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.453e-02 U_stat=3.850e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.769e-02 U_stat=3.700e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.426e-01 U_stat=1.800e+02 https://www.proteinatlas.org/ENSG00000102755-FLT1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.176e-03 U_stat=8.100e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.987e-03 U_stat=1.120e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.049e-04 U_stat=9.800e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.222e-02 U_stat=1.190e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.064e-02 U_stat=3.380e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000116016-EPAS1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.921e-01 U_stat=2.230e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.391e-01 U_stat=3.010e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.296e-01 U_stat=3.310e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.246e-01 U_stat=2.200e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.446e-01 U_stat=2.290e+02 https://www.proteinatlas.org/ENSG00000116016-EPAS1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.391e-02 U_stat=3.290e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.604e-01 U_stat=3.050e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.228e-01 U_stat=2.340e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.913e-02 U_stat=3.690e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.053e-03 U_stat=1.060e+02 https://www.proteinatlas.org/ENSG00000116016-EPAS1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.470e-02 U_stat=1.140e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.450e-02 U_stat=3.440e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.511e-03 U_stat=3.910e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.955e-04 U_stat=3.840e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.278e-02 U_stat=1.320e+02 https://www.proteinatlas.org/ENSG00000168961-LGALS9/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.709e-03 U_stat=3.590e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.608e-01 U_stat=1.710e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.971e-01 U_stat=1.770e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.232e-03 U_stat=9.400e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.182e-01 U_stat=2.460e+02 https://www.proteinatlas.org/ENSG00000168961-LGALS9/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.700e-01 U_stat=2.330e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.796e-01 U_stat=3.470e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.084e-02 U_stat=1.960e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.583e-01 U_stat=2.680e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.036e-01 U_stat=3.340e+02 https://www.proteinatlas.org/ENSG00000168961-LGALS9/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.649e-03 U_stat=8.500e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.119e-01 U_stat=2.410e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.761e-02 U_stat=1.600e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.649e-03 U_stat=1.050e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.852e-02 U_stat=1.510e+02 https://www.proteinatlas.org/ENSG00000100644-HIF1A/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.314e-01 U_stat=1.750e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.497e-02 U_stat=1.440e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.748e-02 U_stat=1.450e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.180e-01 U_stat=1.800e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.431e-01 U_stat=2.730e+02 https://www.proteinatlas.org/ENSG00000100644-HIF1A/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.046e-03 U_stat=3.540e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.602e-05 U_stat=5.090e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.301e-02 U_stat=3.980e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.406e-03 U_stat=4.200e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.751e-02 U_stat=3.380e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000100644-HIF1A/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.747e-01 U_stat=2.380e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.367e-01 U_stat=3.300e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.478e-02 U_stat=3.750e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.261e-01 U_stat=2.320e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.666e-01 U_stat=3.080e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000138079-SLC3A1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.483e-01 U_stat=2.820e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.036e-01 U_stat=3.180e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.650e-01 U_stat=2.650e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.566e-01 U_stat=2.710e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 old v.s. young: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.711e-01 U_stat=1.810e+02 https://www.proteinatlas.org/ENSG00000138079-SLC3A1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.590e-02 U_stat=3.360e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.333e-01 U_stat=2.230e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.775e-01 U_stat=3.110e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.732e-02 U_stat=3.590e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.347e-02 U_stat=1.570e+02 https://www.proteinatlas.org/ENSG00000138079-SLC3A1/pathology/renal+cancer/KIRC
In [21]:
# Lastly, for a QC top ones done for each gene in the top/bottom 5 for each cluster.
# For each cluste pick the n largest and smallest and do teh above plots
rcm_labels = ["MDE", "TPDE", "TPDS", "TMDS", "TMDE", "MDS"]
from sciutil import SciUtil
u = SciUtil()
n = 5
comparisons = ['PBRM1-BAP1', 'Stage IV-Stage I', 'old-young']
labels = ['Mutation','Tumor Stage', 'Age']
for c_i, comparison in enumerate(comparisons):
for r in rcm_labels:
u.dp([r])
r_df = vae_rcm_df[vae_rcm_df['Regulation_Grouping_2'] == r]
# Filter to just significant
vae_change = f'Integrated diff ({comparison})'
vae_p = f'Integrated padj ({comparison})'
cond1 = comparison.split('-')[0]
cond0 = comparison.split('-')[1]
r_df = r_df[r_df[vae_p] <= 0.05]
top_df = r_df[r_df[vae_change] > 0]
bot_df = r_df[r_df[vae_change] < 0]
top_df = top_df.nlargest(n, vae_change)
bot_df = bot_df.nsmallest(n, vae_change)
# For each of the IDs pop it through
u.warn_p(['Top 5'])
for ensembl_id in top_df.index.values:
gene_name = ens_to_gene[ensembl_id] # Easier to use the gene name for display
plot_gene_logfcs(ensembl_id, cond0, cond1, x=labels[c_i])
u.warn_p(['Bottom 5'])
for ensembl_id in bot_df.index.values:
gene_name = ens_to_gene[ensembl_id] # Easier to use the gene name for display
plot_gene_logfcs(ensembl_id, cond0, cond1, x=labels[c_i])
-------------------------------------------------------------------------------- MDE -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Top 5 -------------------------------------------------------------------------------- p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.049e-04 U_stat=3.740e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.987e-03 U_stat=1.120e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.189e-05 U_stat=5.100e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.180e-05 U_stat=4.400e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.898e-05 U_stat=4.270e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000185100-ADSS1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.742e-05 U_stat=3.840e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.500e-01 U_stat=2.040e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.909e-01 U_stat=2.660e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.372e-06 U_stat=3.600e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.157e-03 U_stat=3.750e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000132639-SNAP25/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.176e-03 U_stat=3.480e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.502e-04 U_stat=8.500e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.948e-04 U_stat=8.700e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.323e-03 U_stat=1.040e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.381e-01 U_stat=2.490e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000091127-PUS7/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.438e-05 U_stat=3.880e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.304e-04 U_stat=8.400e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.272e-06 U_stat=2.900e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.292e-04 U_stat=6.200e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.128e-02 U_stat=3.600e+02 https://www.proteinatlas.org/ENSG00000109107-ALDOC/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.822e-04 U_stat=3.560e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.721e-03 U_stat=1.360e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.039e-04 U_stat=9.600e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.604e-03 U_stat=9.100e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.330e-02 U_stat=3.480e+02 https://www.proteinatlas.org/ENSG00000024422-EHD2/pathology/renal+cancer/KIRC
-------------------------------------------------------------------------------- Bottom 5 -------------------------------------------------------------------------------- p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.576e-05 U_stat=5.300e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.758e-04 U_stat=4.280e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.799e-05 U_stat=4.500e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.435e-05 U_stat=4.150e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.316e-01 U_stat=2.610e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000198758-EPS8L3/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.261e-05 U_stat=3.500e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.189e-05 U_stat=4.670e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.065e-05 U_stat=4.570e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.967e-05 U_stat=4.080e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.788e-02 U_stat=3.280e+02 https://www.proteinatlas.org/ENSG00000277586-NEFL/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.994e-05 U_stat=5.100e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.208e-01 U_stat=3.330e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.927e-01 U_stat=2.920e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.113e-06 U_stat=4.290e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.128e-02 U_stat=3.270e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000075340-ADD2/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.281e-03 U_stat=8.200e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.960e-02 U_stat=3.570e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.217e-02 U_stat=3.610e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.465e-04 U_stat=3.770e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.031e-01 U_stat=2.390e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000242515-UGT1A10/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.356e-04 U_stat=6.700e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.502e-04 U_stat=4.330e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.573e-05 U_stat=4.470e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.031e-03 U_stat=3.610e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.733e-01 U_stat=2.950e+02 https://www.proteinatlas.org/ENSG00000105976-MET/pathology/renal+cancer/KIRC
-------------------------------------------------------------------------------- TPDE -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Top 5 -------------------------------------------------------------------------------- p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.690e-06 U_stat=2.800e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.215e-04 U_stat=1.000e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.596e-06 U_stat=4.500e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.161e-05 U_stat=3.800e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.066e-01 U_stat=2.830e+02 https://www.proteinatlas.org/ENSG00000147231-RADX/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.758e-05 U_stat=3.800e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.300e-05 U_stat=6.700e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.270e-05 U_stat=7.200e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.043e-05 U_stat=3.700e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.483e-01 U_stat=2.600e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000147202-DIAPH2/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.656e-03 U_stat=9.800e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.367e-01 U_stat=1.880e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.968e-02 U_stat=1.480e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.597e-04 U_stat=7.600e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.909e-04 U_stat=4.030e+02 https://www.proteinatlas.org/ENSG00000079689-SCGN/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.918e-03 U_stat=9.200e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.836e-03 U_stat=1.250e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.022e-03 U_stat=1.180e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.583e-02 U_stat=1.230e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.733e-01 U_stat=2.950e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000087250-MT3/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.792e-03 U_stat=8.600e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.734e-01 U_stat=1.940e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.652e-01 U_stat=2.380e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.710e-04 U_stat=6.500e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.000e+00 U_stat=2.450e+02 https://www.proteinatlas.org/ENSG00000119630-PGF/pathology/renal+cancer/KIRC
-------------------------------------------------------------------------------- Bottom 5 -------------------------------------------------------------------------------- p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.691e-05 U_stat=3.800e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.685e-05 U_stat=4.550e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.919e-05 U_stat=4.620e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.701e-04 U_stat=3.850e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.446e-02 U_stat=3.560e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000177409-SAMD9L/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.822e-04 U_stat=3.560e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.511e-03 U_stat=3.910e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.612e-04 U_stat=4.190e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.558e-04 U_stat=3.910e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.000e+00 U_stat=2.450e+02 https://www.proteinatlas.org/ENSG00000012779-ALOX5/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.024e-03 U_stat=3.300e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.033e-02 U_stat=3.810e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.289e-03 U_stat=4.040e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.323e-03 U_stat=3.510e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.000e+00 U_stat=2.450e+02 https://www.proteinatlas.org/ENSG00000204632-HLA-G/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.486e-03 U_stat=3.390e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.142e-03 U_stat=3.830e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.314e-02 U_stat=3.770e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.481e-03 U_stat=3.650e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.000e+00 U_stat=2.450e+02 https://www.proteinatlas.org/ENSG00000157601-MX1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.649e-03 U_stat=3.440e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.196e-03 U_stat=4.130e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.022e-03 U_stat=4.000e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.640e-03 U_stat=3.450e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.000e+00 U_stat=2.450e+02 https://www.proteinatlas.org/ENSG00000128335-APOL2/pathology/renal+cancer/KIRC
-------------------------------------------------------------------------------- TPDS -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Top 5 -------------------------------------------------------------------------------- p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.162e-06 U_stat=3.000e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.455e-03 U_stat=1.150e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.065e-05 U_stat=6.100e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.595e-05 U_stat=4.100e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.000e+00 U_stat=2.450e+02 https://www.proteinatlas.org/ENSG00000165959-CLMN/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.964e-04 U_stat=7.500e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.585e-01 U_stat=2.150e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.566e-02 U_stat=1.440e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.292e-04 U_stat=6.200e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.559e-01 U_stat=2.480e+02 https://www.proteinatlas.org/ENSG00000175600-SUGCT/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.993e-03 U_stat=9.600e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.968e-02 U_stat=1.480e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.836e-03 U_stat=1.250e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.232e-04 U_stat=7.200e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.354e-01 U_stat=2.165e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000072042-RDH11/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.517e-03 U_stat=8.400e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.033e-02 U_stat=1.370e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.612e-04 U_stat=9.900e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.372e-03 U_stat=9.600e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.526e-01 U_stat=2.025e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000171723-GPHN/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.486e-03 U_stat=9.000e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.092e-01 U_stat=1.990e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.089e-02 U_stat=1.660e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.764e-03 U_stat=9.800e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.508e-01 U_stat=2.540e+02 https://www.proteinatlas.org/ENSG00000276644-DACH1/pathology/renal+cancer/KIRC
-------------------------------------------------------------------------------- Bottom 5 -------------------------------------------------------------------------------- p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.261e-05 U_stat=3.940e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.659e-02 U_stat=3.730e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.558e-04 U_stat=4.160e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.354e-04 U_stat=3.720e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.038e-01 U_stat=1.710e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000132855-ANGPTL3/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.261e-05 U_stat=3.940e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.511e-03 U_stat=3.910e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.722e-03 U_stat=4.080e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.771e-05 U_stat=4.130e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.000e+00 U_stat=2.450e+02 https://www.proteinatlas.org/ENSG00000167608-TMC4/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.160e-04 U_stat=3.730e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.659e-02 U_stat=3.730e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.602e-03 U_stat=4.090e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.419e-04 U_stat=3.920e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.822e-01 U_stat=2.260e+02 https://www.proteinatlas.org/ENSG00000154277-UCHL1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.684e-04 U_stat=3.610e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.287e-03 U_stat=4.120e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.277e-04 U_stat=4.410e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.465e-03 U_stat=3.540e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.000e+00 U_stat=2.450e+02 https://www.proteinatlas.org/ENSG00000118514-ALDH8A1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.365e-05 U_stat=3.850e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.879e-03 U_stat=3.900e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.163e-03 U_stat=3.920e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.771e-05 U_stat=4.130e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.000e+00 U_stat=2.450e+02 https://www.proteinatlas.org/ENSG00000135447-PPP1R1A/pathology/renal+cancer/KIRC
-------------------------------------------------------------------------------- TMDS -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Top 5 -------------------------------------------------------------------------------- p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.055e-04 U_stat=6.600e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.061e-01 U_stat=2.270e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.167e-02 U_stat=1.620e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.826e-05 U_stat=5.800e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.136e-01 U_stat=1.730e+02 https://www.proteinatlas.org/ENSG00000072657-TRHDE/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.747e-05 U_stat=5.200e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.611e-02 U_stat=1.680e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.163e-03 U_stat=1.260e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.907e-05 U_stat=5.200e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.926e-02 U_stat=1.460e+02 https://www.proteinatlas.org/ENSG00000151338-MIPOL1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.176e-03 U_stat=8.100e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.527e-03 U_stat=1.240e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.455e-03 U_stat=1.150e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.261e-03 U_stat=8.800e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.185e-01 U_stat=2.220e+02 https://www.proteinatlas.org/ENSG00000172260-NEGR1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.041e-04 U_stat=6.900e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.264e-01 U_stat=2.120e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.110e-01 U_stat=1.830e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.980e-05 U_stat=5.400e+01 p-value annotation legend:
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.846e-02 U_stat=3.310e+02 https://www.proteinatlas.org/ENSG00000172828-CES3/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.964e-04 U_stat=7.500e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.697e-01 U_stat=2.160e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.542e-01 U_stat=1.910e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.597e-04 U_stat=7.600e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.822e-01 U_stat=2.260e+02 https://www.proteinatlas.org/ENSG00000257335-MGAM/pathology/renal+cancer/KIRC
-------------------------------------------------------------------------------- Bottom 5 -------------------------------------------------------------------------------- p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.311e-07 U_stat=4.170e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.863e-04 U_stat=4.170e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.950e-04 U_stat=4.360e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.759e-07 U_stat=4.470e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.821e-01 U_stat=2.320e+02 https://www.proteinatlas.org/ENSG00000108179-PPIF/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.792e-03 U_stat=3.430e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.236e-03 U_stat=3.990e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.237e-03 U_stat=3.950e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.604e-03 U_stat=3.640e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.469e-01 U_stat=2.020e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000002726-AOC1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.691e-05 U_stat=3.800e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.075e-03 U_stat=3.850e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.385e-03 U_stat=4.110e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.180e-05 U_stat=4.110e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.544e-01 U_stat=2.970e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000148344-PTGES/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.620e-05 U_stat=3.820e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.463e-03 U_stat=3.980e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.072e-04 U_stat=4.270e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.868e-06 U_stat=4.250e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.000e+00 U_stat=2.450e+02 https://www.proteinatlas.org/ENSG00000149418-ST14/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.720e-04 U_stat=3.690e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.314e-02 U_stat=3.770e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.463e-03 U_stat=3.980e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.679e-05 U_stat=4.090e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.637e-01 U_stat=2.960e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000127838-PNKD/pathology/renal+cancer/KIRC
-------------------------------------------------------------------------------- TMDE -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Top 5 -------------------------------------------------------------------------------- p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.716e-05 U_stat=4.200e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.745e-05 U_stat=5.500e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.685e-05 U_stat=6.300e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.558e-04 U_stat=6.400e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.000e+00 U_stat=2.450e+02 https://www.proteinatlas.org/ENSG00000101871-MID1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.742e-05 U_stat=4.500e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.164e-04 U_stat=9.400e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.931e-05 U_stat=7.000e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.392e-02 U_stat=1.210e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.599e-01 U_stat=1.810e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000119640-ACYP1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.610e-04 U_stat=7.600e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.754e-02 U_stat=1.800e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.314e-02 U_stat=1.410e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.014e-04 U_stat=7.700e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.342e-01 U_stat=2.230e+02 https://www.proteinatlas.org/ENSG00000154217-PITPNC1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.486e-03 U_stat=9.000e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.383e-02 U_stat=1.630e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.110e-03 U_stat=1.040e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.232e-04 U_stat=7.200e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.478e-03 U_stat=3.710e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000151364-KCTD14/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.281e-03 U_stat=8.200e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.721e-03 U_stat=1.360e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.799e-05 U_stat=6.800e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.649e-03 U_stat=1.050e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.138e-01 U_stat=2.150e+02 https://www.proteinatlas.org/ENSG00000182621-PLCB1/pathology/renal+cancer/KIRC
-------------------------------------------------------------------------------- Bottom 5 -------------------------------------------------------------------------------- p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.318e-04 U_stat=3.570e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.196e-03 U_stat=4.130e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.863e-04 U_stat=4.170e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.354e-04 U_stat=3.720e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.857e-01 U_stat=2.130e+02 https://www.proteinatlas.org/ENSG00000160678-S100A1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.497e-06 U_stat=4.080e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.572e-02 U_stat=3.590e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.611e-02 U_stat=3.500e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.215e-06 U_stat=4.320e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.508e-01 U_stat=2.360e+02 https://www.proteinatlas.org/ENSG00000114923-SLC4A3/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.215e-06 U_stat=4.090e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.423e-05 U_stat=4.530e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.441e-05 U_stat=4.650e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.113e-06 U_stat=4.290e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.877e-01 U_stat=2.700e+02 https://www.proteinatlas.org/ENSG00000108639-SYNGR2/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.281e-03 U_stat=3.470e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.142e-03 U_stat=3.830e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.588e-01 U_stat=3.130e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.323e-03 U_stat=3.510e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.000e+00 U_stat=2.450e+02 https://www.proteinatlas.org/ENSG00000213512-GBP7/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.176e-03 U_stat=3.480e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.463e-03 U_stat=3.980e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.527e-03 U_stat=3.940e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.120e-03 U_stat=3.440e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.585e-01 U_stat=2.110e+02 https://www.proteinatlas.org/ENSG00000102699-PARP4/pathology/renal+cancer/KIRC
-------------------------------------------------------------------------------- MDS -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Top 5 -------------------------------------------------------------------------------- p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.896e-04 U_stat=6.100e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.566e-02 U_stat=1.440e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.463e-03 U_stat=1.200e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument. No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.558e-04 U_stat=6.400e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.074e-02 U_stat=3.500e+02 https://www.proteinatlas.org/ENSG00000074527-NTN4/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.281e-03 U_stat=8.200e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.208e-01 U_stat=1.850e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.217e-02 U_stat=1.570e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.481e-03 U_stat=9.000e+01 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.138e-01 U_stat=2.750e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
https://www.proteinatlas.org/ENSG00000139344-AMDHD1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.289e-03 U_stat=1.020e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.475e-01 U_stat=2.300e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.345e-02 U_stat=1.670e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.655e-01 U_stat=1.790e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.186e-03 U_stat=3.920e+02 https://www.proteinatlas.org/ENSG00000173598-NUDT4/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.088e-04 U_stat=6.200e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.411e-01 U_stat=2.690e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.331e-01 U_stat=2.020e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.736e-03 U_stat=9.200e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.576e-01 U_stat=2.180e+02 https://www.proteinatlas.org/ENSG00000005108-THSD7A/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.839e-03 U_stat=1.010e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.800e-02 U_stat=1.750e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.133e-03 U_stat=1.130e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.222e-02 U_stat=1.190e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.357e-01 U_stat=2.890e+02 https://www.proteinatlas.org/ENSG00000127955-GNAI1/pathology/renal+cancer/KIRC
-------------------------------------------------------------------------------- Bottom 5 -------------------------------------------------------------------------------- p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.129e-05 U_stat=3.810e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.799e-05 U_stat=4.500e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.361e-05 U_stat=4.560e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.679e-05 U_stat=4.090e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.787e-04 U_stat=8.900e+01 https://www.proteinatlas.org/ENSG00000130413-STK33/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.560e-04 U_stat=3.700e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.659e-02 U_stat=3.730e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.198e-04 U_stat=4.300e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.876e-04 U_stat=3.890e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.295e-01 U_stat=3.140e+02 https://www.proteinatlas.org/ENSG00000145626-UGT3A1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.293e-03 U_stat=3.400e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.539e-02 U_stat=3.410e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.757e-02 U_stat=3.720e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.031e-03 U_stat=3.610e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.637e-01 U_stat=1.940e+02 https://www.proteinatlas.org/ENSG00000159166-LAD1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.024e-03 U_stat=3.300e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.289e-03 U_stat=4.040e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.039e-04 U_stat=4.220e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.736e-03 U_stat=3.630e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.788e-02 U_stat=3.280e+02 https://www.proteinatlas.org/ENSG00000099812-MISP/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.079e-03 U_stat=3.490e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.121e-03 U_stat=3.870e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.602e-03 U_stat=4.090e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.071e-03 U_stat=3.690e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 BAP1 v.s. PBRM1: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.856e-01 U_stat=2.380e+02 https://www.proteinatlas.org/ENSG00000182795-C1orf116/pathology/renal+cancer/KIRC
-------------------------------------------------------------------------------- MDE -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Top 5 -------------------------------------------------------------------------------- p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.174e-04 U_stat=4.020e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.202e-03 U_stat=1.280e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.734e-03 U_stat=1.180e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.254e-03 U_stat=1.040e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.684e-02 U_stat=1.650e+02 https://www.proteinatlas.org/ENSG00000136231-IGF2BP3/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.170e-03 U_stat=3.660e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.905e-02 U_stat=1.810e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.418e-01 U_stat=2.080e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.287e-03 U_stat=1.140e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.102e-02 U_stat=3.500e+02 https://www.proteinatlas.org/ENSG00000242515-UGT1A10/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.883e-04 U_stat=3.830e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.038e-02 U_stat=1.620e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.057e-03 U_stat=1.320e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.564e-03 U_stat=1.150e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.849e-01 U_stat=2.390e+02 https://www.proteinatlas.org/ENSG00000100097-LGALS1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.615e-03 U_stat=3.700e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.711e-04 U_stat=1.090e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.057e-03 U_stat=1.320e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.510e-02 U_stat=1.650e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.567e-02 U_stat=1.330e+02 https://www.proteinatlas.org/ENSG00000170231-FABP6/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.740e-03 U_stat=3.690e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.990e-01 U_stat=2.180e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.813e-02 U_stat=1.980e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.627e-04 U_stat=7.400e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.479e-03 U_stat=1.080e+02 https://www.proteinatlas.org/ENSG00000122884-P4HA1/pathology/renal+cancer/KIRC
-------------------------------------------------------------------------------- Bottom 5 -------------------------------------------------------------------------------- p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.023e-03 U_stat=7.400e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.016e-04 U_stat=4.800e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.846e-03 U_stat=4.570e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.330e-03 U_stat=4.070e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.934e-01 U_stat=2.330e+02 https://www.proteinatlas.org/ENSG00000179403-VWA1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.987e-04 U_stat=5.400e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.111e-04 U_stat=4.890e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.670e-02 U_stat=4.180e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.553e-02 U_stat=3.810e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.203e-01 U_stat=2.780e+02 https://www.proteinatlas.org/ENSG00000179144-GIMAP7/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.498e-03 U_stat=7.900e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.673e-03 U_stat=4.510e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.819e-02 U_stat=3.910e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.197e-03 U_stat=3.970e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.791e-01 U_stat=2.970e+02 https://www.proteinatlas.org/ENSG00000164116-GUCY1A1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.873e-03 U_stat=8.200e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.434e-02 U_stat=4.210e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.588e-02 U_stat=4.190e+02 p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.834e-03 U_stat=3.980e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.921e-01 U_stat=2.260e+02 https://www.proteinatlas.org/ENSG00000061337-LZTS1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.498e-03 U_stat=7.900e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.181e-03 U_stat=4.640e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.959e-04 U_stat=4.700e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.974e-03 U_stat=4.150e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.426e-01 U_stat=3.260e+02 https://www.proteinatlas.org/ENSG00000173269-MMRN2/pathology/renal+cancer/KIRC
-------------------------------------------------------------------------------- TPDE -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Top 5 -------------------------------------------------------------------------------- p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.911e-04 U_stat=6.200e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.711e-04 U_stat=1.090e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.181e-03 U_stat=1.120e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.197e-03 U_stat=1.200e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.014e-01 U_stat=2.110e+02 https://www.proteinatlas.org/ENSG00000071539-TRIP13/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.873e-03 U_stat=8.200e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.412e-01 U_stat=2.360e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.484e-01 U_stat=2.840e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.177e-02 U_stat=1.310e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=8.005e-01 U_stat=2.400e+02 https://www.proteinatlas.org/ENSG00000133488-SEC14L4/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.740e-03 U_stat=8.100e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.215e-01 U_stat=2.440e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.019e-01 U_stat=1.990e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.391e-02 U_stat=1.340e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.124e-01 U_stat=1.740e+02 https://www.proteinatlas.org/ENSG00000175063-UBE2C/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=6.169e-03 U_stat=9.900e+01
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.761e-02 U_stat=1.750e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.168e-03 U_stat=1.420e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.306e-02 U_stat=1.560e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.000e+00 U_stat=2.530e+02 https://www.proteinatlas.org/ENSG00000128335-APOL2/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.039e-03 U_stat=1.010e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.358e-02 U_stat=1.650e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=5.414e-03 U_stat=1.370e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.034e-01 U_stat=1.760e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.000e+00 U_stat=2.530e+02 https://www.proteinatlas.org/ENSG00000265190-ANXA8/pathology/renal+cancer/KIRC
-------------------------------------------------------------------------------- Bottom 5 -------------------------------------------------------------------------------- p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=9.812e-05 U_stat=4.040e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.027e-04 U_stat=4.840e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=4.557e-03 U_stat=4.420e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.099e-04 U_stat=4.540e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.000e+00 U_stat=2.530e+02 https://www.proteinatlas.org/ENSG00000261371-PECAM1/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.174e-04 U_stat=4.020e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=3.251e-04 U_stat=4.830e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.846e-03 U_stat=4.570e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=2.627e-04 U_stat=4.430e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.378e-03 U_stat=1.200e+02 https://www.proteinatlas.org/ENSG00000064989-CALCRL/pathology/renal+cancer/KIRC
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.174e-04 U_stat=4.020e+02
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.181e-03 U_stat=4.640e+02 Protein p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=7.467e-04 U_stat=4.290e+02 RNA
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
p-value annotation legend: ns: 5.00e-02 < p <= 1.00e+00 *: 1.00e-02 < p <= 5.00e-02 **: 1.00e-03 < p <= 1.00e-02 ***: 1.00e-04 < p <= 1.00e-03 ****: p <= 1.00e-04 Stage I v.s. Stage IV: Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction, P_val=1.000e+00 U_stat=2.530e+02 https://www.proteinatlas.org/ENSG00000176435-CLEC14A/pathology/renal+cancer/KIRC
KeyboardInterrupt
Perform GSEA using fGSEA¶
We need to save in the correct format and the re-read all in and save as a summary file (since it otherwise takes too long to look at every file).
conds = c('Stage1-Stage4', 'young-old', 'PBRM1-Female', 'middle-old', 'Random0.1-Random1.1', 'Random0.2-Random1.2', 'Random0.3-Random1.3', 'Random0.4-Random1.4')
for (cases_conds in conds) {
for (r in reg_grps) {
sircleFileName <- paste0('../data/S050_CCRCC_Clark_Cell2019/sircle/all_patients/all_cpgs/Integration/output_data/GSEA/', r, '-IntegrationModel-stats-',cases_conds ,'-.csv')
# https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-11-587
vis_df <- read.csv(sircleFileName)
# Run GSEA on the consistently changed genes between late and early stage using the t-stat as the rank
GSEA_results <- GSEASetupSircle(vis_df, paste0(cases_conds, " ", r), gene_name="hgnc_symbol", stat='diff', GSEA_file_dir=GSEA_file_dir, output_dir='../data/S050_CCRCC_Clark_Cell2019/sircle/all_patients/all_cpgs/Integration/output_data/GSEA/', pathway_list=pathway_list)
}
}https://www.nature.com/articles/s41581-020-00359-2/figures/6
In [22]:
gsea_dir = f'{output_dir}Integrated_fGSEA/fGSEA/' #output_dir = f'{base_dir}sircle/F6_integrative_comparisons/'
--------------------------------------------------------------------------- NameError Traceback (most recent call last) Input In [22], in <cell line: 1>() ----> 1 gsea_dir NameError: name 'gsea_dir' is not defined
Consolidate GSEA into single file for supps¶
In [24]:
import os
from sciutil import SciUtil
u = SciUtil()
rcm_labels = ["MDS", "MDS_TMDE", "MDE", "MDE_TMDS", "TMDE", "TMDS", "TPDE", "TPDE_TMDS", "TPDS", "TPDS_TMDE"]
files = os.listdir(f'{output_dir}Integrated_fGSEA/fGSEA/')
# Read through each one and print out each of the various
# Read through each one and print out each of the various
comparisons = ['PBRM1-BAP1', 'Stage IV-Stage I', 'old-young']
comp_map = {'mutation': 'PBRM1-BAP1', 'S4-S1': 'Stage IV-Stage I', 'age': 'old-young'}
for comp in comparisons:
with open( f'{output_dir}Integrated_fGSEA/{comp}_consolidated_metabolic_GSEA.tsv', 'w+') as fout:
fout.write(f'Comparison\tRegulation_Grouping_2\tPathway\t fGSEA NES\t fGSEA padj\t fGSEA pval \t fGSEA size\n')
for f in files:
if comp == 'Stage IV-Stage I':
f_name = f.replace('Stage_IV-Stage_I', 'Stage IV-Stage I')
else:
f_name = f
f_name = '_'.join(f_name.split('_')[1:])
if 'MetabolicPathways.csv' in f_name and comp == f_name.split('_')[0]:
f_s = f_name.split('_')
if f_s[1] in rcm_labels:
if f_s[2] == 'GSEA':
reg_label = f_s[1]
else:
reg_label = f_s[1] + '&' + f_s[2]
gsea = pd.read_csv(f'{output_dir}Integrated_fGSEA/fGSEA/{f}')
sig_gsea = gsea
# Make sure the size is > 3
sig_gsea = sig_gsea.sort_values(by='NES')
for i, g in enumerate(sig_gsea['pathway'].values):
fout.write(f'{comp}\t{reg_label}\t{g}\t{sig_gsea["NES"].values[i]}\t{sig_gsea["padj"].values[i]}\t{sig_gsea["pval"].values[i]}\t{sig_gsea["size"].values[i]}\n')