title: Discovering modulators of gene expression.
abstract: Proteins that modulate the activity of transcription factors, often called modulators, play a critical role in creating tissue- and context-specific gene expression responses to the signals cells receive. GEM (Gene Expression Modulation) is a probabilistic framework that predicts modulators, their affected targets and mode of action by combining gene expression profiles, protein-protein interactions and transcription factor-target relationships. Using GEM, we correctly predicted a significant number of androgen receptor modulators and observed that most modulators can both act as co-activators and co-repressors for different target genes.
authors.affiliation: Center for Bioinformatics and Computer Engineering Department, Bilkent University, Ankara 06800, Turkey.
authors.forename: Ozgün
authors.initials: O
authors.lastname: Babur
authors.forename: Emek
authors.initials: E
authors.lastname: Demir
authors.forename: Mithat
authors.initials: M
authors.lastname: Gönen
authors.forename: Chris
authors.initials: C
authors.lastname: Sander
authors.forename: Ugur
authors.initials: U
authors.lastname: Dogrusoz
mesh_terms: D000465:Algorithms; D020869:Gene Expression Profiling; D005786:Gene Expression Regulation; D008957:Models, Genetic; D011336:Probability; D025941:Protein Interaction Mapping; D011944:Receptors, Androgen / Q000378:metabolism; D014157:Transcription Factors / Q000378:metabolism*; D014158:Transcription, Genetic
chemical_list: D011944:Receptors, Androgen; D014157:Transcription Factors
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