DOI: 10.5281/zenodo.15293714
title: hu.MAP 2.0: integration of over 15,000 proteomic experiments builds a global compendium of human multiprotein assemblies (dataset)

description: hu.MAP2.0 is the intergration of 15,000 mass spectrometry based proteomics experiments to identify protein complexes. The files here are downloadable files from the hu.MAP2.0 website: http://humap2.proteincomplexes.org/download . 

 

hu.MAP2.0 Protein Complex Map

humap2_complexes_20200809.txt    Description: Complexes generated from two stage clustering of fully intergrated protein interaction network    Format: HuMAP2_ID,Confidence,Uniprot_ACCs,genenames    Confidence maps to complexes identified in 5 individual clusterings. 1=Extremely High, 2=Very High, 3=High, 4=Medium High, 5=Medium

 

hu.MAP2.0 Protein Interaction Network with probability scores 

humap2_ppis_ACC_20200821.pairsWprob.gz (Uniprot ACCs)

humap2_ppis_genename_20200821.pairsWprob.gz (genename)

humap2_ppis_geneid_20200821.pairsWprob.gz (geneid)



Description: All protein pair predictions with the corresponding svm probability score.

Format: protein_id [tab] protein_id [tab] score


 

hu.MAP2.0 Cytoscape network:

humap2_protein_complex_map_20200821.cys



Description: Cytoscape network of hu.MAP 2.0

Node colors represent complex confidence



Extremely High = Green

Very High = Blue

High = Teal

Medium High = Yellow

Medium = Gray



Edge colors represent gold standard edges



Positive Test = Green

Positive Train = Blue

Negative Test = Yellow

Negative Train = Red




 

hu.MAP2.0 Test and Training Data:

humap2_train_complexes_ACC_20200818.txt (Uniprot ACCs)humap2_train_complexes_geneid_20200818.txt (geneid)



Description: List of training complexes used in protein complex discovery pipeline

Format: protein_id, protein_id, protein_id ... (one complex per line)


humap2_test_complexes_ACC_20200818.txt (Uniprot ACCs)humap2_test_complexes_geneid_20200818.txt (geneid)



Description: List of test complexes used in protein complex discovery pipeline

Format: protein_id, protein_id, protein_id ... (one complex per line)


humap2_train_ppis_ACC_20200818.txt (Uniprot ACCs)humap2_train_ppis_geneid_20200818.txt (geneid)



Description: List of train postive ppis used in protein complex discovery pipeline

Format: protein_id, protein_id


humap2_neg_train_ppis_ACC_20200818.txt (Uniprot ACCs)humap2_neg_train_ppis_geneid_20200818.txt (geneid)



Description: List of train negative ppis used in protein complex discovery pipeline

Format: protein_id, protein_id


humap2_test_ppis_ACC_20200818.txt (Uniprot ACCs)humap2_test_ppis_geneid_20200818.txt (geneid)



Description: List of test positive ppis used in protein complex discovery pipeline

Format: protein_id, protein_id


humap2_neg_test_ppis_ACC_20200818.txt (Uniprot ACCs)humap2_neg_test_ppis_geneid_20200818.txt (geneid)



Description: List of test negative ppis used in protein complex discovery pipeline

Format: protein_id, protein_id


 

hu.MAP2.0 feature matrix:

humap2_feature_matrix_20200820.featmat.gz



Description: Table of features from integrated datasets for pairs of proteins (geneids). Also includes Weighted Matrix Model features

Format: protein_id,protein_id,[features]