title: Analysis of the human endogenous coregulator complexome.
abstract: Elucidation of endogenous cellular protein-protein interactions and their networks is most desirable for biological studies. Here we report our study of endogenous human coregulator protein complex networks obtained from integrative mass spectrometry-based analysis of 3290 affinity purifications. By preserving weak protein interactions during complex isolation and utilizing high levels of reciprocity in the large dataset, we identified many unreported protein associations, such as a transcriptional network formed by ZMYND8, ZNF687, and ZNF592. Furthermore, our work revealed a tiered interplay within networks that share common proteins, providing a conceptual organization of a cellular proteome composed of minimal endogenous modules (MEMOs), complex isoforms (uniCOREs), and regulatory complex-complex interaction networks (CCIs). This resource will effectively fill a void in linking correlative genomic studies with an understanding of transcriptional regulatory protein functions within the proteome for formulation and testing of future hypotheses.
authors.affiliation: Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, TX 77030, USA.
authors.forename: Anna
authors.initials: A
authors.lastname: Malovannaya
authors.forename: Rainer B
authors.initials: RB
authors.lastname: Lanz
authors.forename: Sung Yun
authors.initials: SY
authors.lastname: Jung
authors.forename: Yaroslava
authors.initials: Y
authors.lastname: Bulynko
authors.forename: Nguyen T
authors.initials: NT
authors.lastname: Le
authors.forename: Doug W
authors.initials: DW
authors.lastname: Chan
authors.forename: Chen
authors.initials: C
authors.lastname: Ding
authors.forename: Yi
authors.initials: Y
authors.lastname: Shi
authors.forename: Nur
authors.initials: N
authors.lastname: Yucer
authors.forename: Giedre
authors.initials: G
authors.lastname: Krenciute
authors.forename: Beom-Jun
authors.initials: BJ
authors.lastname: Kim
authors.forename: Chunshu
authors.initials: C
authors.lastname: Li
authors.forename: Rui
authors.initials: R
authors.lastname: Chen
authors.forename: Wei
authors.initials: W
authors.lastname: Li
authors.forename: Yi
authors.initials: Y
authors.lastname: Wang
authors.forename: Bert W
authors.initials: BW
authors.lastname: O'Malley
authors.forename: Jun
authors.initials: J
authors.lastname: Qin
mesh_terms: D000595:Amino Acid Sequence; D019313:BRCA1 Protein / Q000378:metabolism; D055106:Genome-Wide Association Study; D006801:Humans; D047468:Immunoprecipitation; D013058:Mass Spectrometry; D008969:Molecular Sequence Data; D025941:Protein Interaction Mapping; D011506:Proteins / Q000378:metabolism*; D020543:Proteome / Q000032:analysis*; D018160:Receptors, Cytoplasmic and Nuclear / Q000378:metabolism; D014158:Transcription, Genetic
chemical_list: D019313:BRCA1 Protein; D011506:Proteins; D020543:Proteome; D018160:Receptors, Cytoplasmic and Nuclear