Abstract
The current knowledge on how transcription factors (TFs), the ultimate targets and executors of cellular signalling pathways, are regulated by protein-protein interactions remains limited. Here, we performed proteomics analyses of soluble and chromatin-associated complexes of 56 TFs, including the targets of many signalling pathways involved in development and cancer, and 37 members of the Forkhead box (FOX) TF family. Using tandem affinity purification followed by mass spectrometry (TAP/MS), we performed 214 purifications and identified 2,156 high-confident protein-protein interactions. We found that most TFs form very distinct protein complexes on and off chromatin. Using this data set, we categorized the transcription-related or unrelated regulators for general or specific TFs. Our study offers a valuable resource of protein-protein interaction networks for a large number of TFs and underscores the general principle that TFs form distinct location-specific protein complexes that are associated with the different regulation and diverse functions of these TFs. Synopsis Chromatin-associated and soluble complexes for 56 human transcription factors (TFs), identified by tandem affinity purification followed by mass spectrometry, indicate that distinct binding partners dictate the regulation and functions of TFs. 2,156 high-confident interactions are identified by TAP/MS for 56 human TFs, including 37 members of the Forkhead box (FOX) TF family. TFs form distinct complexes on and off chromatin. Different TF-binding partners dictate the specific regulation and diverse functions of these TFs.
Original language | English (US) |
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Article number | 775 |
Journal | Molecular Systems Biology |
Volume | 11 |
Issue number | 1 |
DOIs | |
State | Published - Jan 2015 |
Keywords
- forkhead box
- mass spectrometry
- protein-protein interaction
- transcriptional factor
ASJC Scopus subject areas
- General Biochemistry, Genetics and Molecular Biology
- General Immunology and Microbiology
- General Agricultural and Biological Sciences
- Applied Mathematics
MD Anderson CCSG core facilities
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- Functional Genomics Core
- Proteomics Facility