Dataset Information

FAIRE-MS reveals mitotic retention of transcriptional regulators on a proteome-wide scale

ABSTRACT: FAIRE-MS reveals mitotic retention of transcriptional regulators on a proteome-wide scale

ORGANISM(S): Homo Sapiens

SUBMITTER: Ping Xu

PROVIDER: PXD033135 | iProX | Mon Apr 11 00:00:00 BST 2022

REPOSITORIES: iProX

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FAIRE-MS reveals mitotic retention of transcriptional regulators on a proteome-wide scale.

Ye Bingyu B Shen Wenlong W Li Yanchang Y Wang Dong D Zhang Yan Y Li Ping P Yin Man M Wang Yahao Y Xie Dejian D Shi Shu S Yao Tao T Chen Juncai J Xu Ping P Zhao Zhihu Z

FASEB journal : official publication of the Federation of American Societies for Experimental Biology 20230201 2

Mitosis entails global and dramatic alterations, such as higher-order chromatin organization disruption, concomitant with global transcription downregulation. Cells reliably re-establishing gene expression patterns upon mitotic exit and maintaining cellular identities remain poorly understood. Previous studies indicated that certain transcription factors (TFs) remain associated with individual loci during mitosis and serve as mitotic bookmarkers. However, it is unclear which regulatory factors r ...[more]

PMID: 36583687

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Project description:Understanding the regulatory genome remains a significant challenge. Annotation of regulatory elements and identification of the transcription factors (TFs) targeting these elements are key steps in understanding how a given cell interprets its genetic blueprint. One goal of the modENCODE (model organism Encyclopedia of DNA Elements) project is to survey a diverse sampling of TFs, both DNA-binding and non-DNA binding factors, to provide a framework for the subsequent study of the mechanisms by which transcriptional regulators target the genome. Here we provide an updated map of the Drosophila melanogaster regulatory genome based on the location of 84 TFs at various stages of development. This regulatory map reveals a variety of genomic targeting patterns, including factors with strong preferences toward proximal promoter binding, factors that target intergenic and intronic DNA, and factors with distinct chromatin state preferences. The data also suggest the existence of a partially self-contained Polycomb regulatory network, and highlight the importance of Trithorax-like (Trl) in maintaining hotspots of DNA binding throughout development. Furthermore, the data identify over 5,800 instances in which TFs target DNA regions with demonstrated enhancer activity. Regions of high TF co-occupancy are more likely to be associated with open enhancers used across cell types, while lower TF occupancy regions are associated with complex enhancers that are also regulated at the epigenetic level. A putative regulatory network generated based on these 84 regulators reveals hundreds of co-binding events, thousands of potential regulatory interactions, and distinct regulatory strategies at developmental and housekeeping genes. These data serve as a resource for the research community in the continued effort to dissect transcriptional regulatory mechanisms directing Drosophila development. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf This is a dataset generated by the Drosophila Regulatory Elements modENCODE Project led by Kevin P. White at the University of Chicago.

Dataset Information

FAIRE-MS reveals mitotic retention of transcriptional regulators on a proteome-wide scale

Publications

FAIRE-MS reveals mitotic retention of transcriptional regulators on a proteome-wide scale.

Similar Datasets

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