University of Oulu

Göös, H., Kinnunen, M., Salokas, K. et al. Human transcription factor protein interaction networks. Nat Commun 13, 766 (2022).

Human transcription factor protein interaction networks

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Author: Göös, Helka1,2; Kinnunen, Matias1; Salokas, Kari1;
Organizations: 1Institute of Biotechnology, HiLIFE, University of Helsinki, Helsinki, Finland
2Present address: Finnish Red Cross Blood Service, Helsinki, Finland
3Biocenter Oulu and Faculty of Biochemistry and Molecular Medicine, University of Oulu, Oulu, Finland
4Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Fudan University Shanghai Cancer Center, Shanghai Medical College of Fudan University, Shanghai, China
Format: article
Version: published version
Access: open
Online Access: PDF Full Text (PDF, 1.8 MB)
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Language: English
Published: Springer Nature, 2022
Publish Date: 2022-08-22


Transcription factors (TFs) interact with several other proteins in the process of transcriptional regulation. Here, we identify 6703 and 1536 protein–protein interactions for 109 different human TFs through proximity-dependent biotinylation (BioID) and affinity purification mass spectrometry (AP-MS), respectively. The BioID analysis identifies more high-confidence interactions, highlighting the transient and dynamic nature of many of the TF interactions. By performing clustering and correlation analyses, we identify subgroups of TFs associated with specific biological functions, such as RNA splicing or chromatin remodeling. We also observe 202 TF-TF interactions, of which 118 are interactions with nuclear factor 1 (NFI) family members, indicating uncharacterized cross-talk between NFI signaling and other TF signaling pathways. Moreover, TF interactions with basal transcription machinery are mainly observed through TFIID and SAGA complexes. This study provides a rich resource of human TF interactions and also act as a starting point for future studies aimed at understanding TF-mediated transcription.

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Series: Nature communications
ISSN: 2041-1723
ISSN-E: 2041-1723
ISSN-L: 2041-1723
Volume: 13
Article number: 766
DOI: 10.1038/s41467-022-28341-5
Type of Publication: A1 Journal article – refereed
Field of Science: 1182 Biochemistry, cell and molecular biology
3111 Biomedicine
Funding: We would like to thank the Orion Research Foundation sr, Finnish Cultural Foundation (HG), Academy of Finland (288475 and 294173), Sigrid Jusélius Foundation, Biocentrum Helsinki, University of Helsinki Three-year Research Grant, Biocentrum Finland, HiLIFE, Instrumentarium Research Foundation (MV), Jane and Aatos Erkko Foundation and Finnish Cancer Foundation (GW).
Copyright information: © The Author(s) 2022. Open Access. This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit