hu.MAP 2.0: integration of over 15,000 proteomic experiments builds a global compendium of human multiprotein assemblies (dataset)

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]