Diverse patterns of genomic targeting by transcriptional regulators in Drosophila melanogaster - Archive ouverte HAL Access content directly
Journal Articles Genome Research Year : 2014

Diverse patterns of genomic targeting by transcriptional regulators in Drosophila melanogaster

(1) , (1) , (1) , (1) , (2) , (3) , (4, 1) , (1) , (1) , (1) , (1) , (1) , (1) , (1) , (1) , (1) , (1) , (1) , (1) , (3, 5) , (1)
1
2
3
4
5

Abstract

Annotation of regulatory elements and identification of the transcription-related factors (TRFs) targeting these elements are key steps in understanding how cells interpret their genetic blueprint and their environment during development, and how that process goes awry in the case of disease. One goal of the modENCODE (model organism ENCyclopedia of DNA Elements) Project is to survey a diverse sampling of TRFs, 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 TRFs 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 highlight the stringency of the Polycomb regulatory network, and show association of the Trithorax-like (Trl) protein with hotspots of DNA binding throughout development. Furthermore, the data identify more than 5800 instances in which TRFs target DNA regions with demonstrated enhancer activity. Regions of high TRF co-occupancy are more likely to be associated with open enhancers used across cell types, while lower TRF occupancy regions are associated with complex enhancers that are also regulated at the epigenetic level. Together these data serve as a resource for the research community in the continued effort to dissect transcriptional regulatory mechanisms directing Drosophila development.
Fichier principal
Vignette du fichier
2014_Slattery_Genome Res_Supplemental_TableS3_3.xlsx (472.17 Ko) Télécharger le fichier Fichier principal
Vignette du fichier
2014_Slattery_Genome Res_Supplemental_TableS4_5.xlsx (31.87 Ko) Télécharger le fichier Fichier principal
Vignette du fichier
2014_Slattery_Genome Res_Supplemental_TableS5_7.xlsx (1.31 Mo) Télécharger le fichier
Vignette du fichier
2014_Slattery_Genome Res_1.pdf (2.64 Mo) Télécharger le fichier
Vignette du fichier
2014_Slattery_Genome Res_Supplemental_Material_2.pdf (605.69 Ko) Télécharger le fichier
Vignette du fichier
2014_Slattery_Genome Res_Supplemental_TableS3_4.xlsx (368.17 Ko) Télécharger le fichier
Vignette du fichier
2014_Slattery_Genome Res_Supplemental_TableS4_6.xlsx (41.7 Ko) Télécharger le fichier
Vignette du fichier
2014_Slattery_Genome Res_Supplemental_TableS5_8.xlsx (511.85 Ko) Télécharger le fichier
Origin : Files produced by the author(s)
Origin : Files produced by the author(s)
Origin : Files produced by the author(s)
Origin : Publisher files allowed on an open archive
Origin : Files produced by the author(s)
Origin : Files produced by the author(s)
Origin : Files produced by the author(s)
Origin : Files produced by the author(s)
Loading...

Dates and versions

hal-01837274 , version 1 (27-05-2020)

Identifiers

Cite

Matthew Slattery, Lijia Ma, Rebecca F. Spokony, Robert K. Arthur, Pouya Kheradpour, et al.. Diverse patterns of genomic targeting by transcriptional regulators in Drosophila melanogaster. Genome Research, 2014, 24 (7), pp.1224-1235. ⟨10.1101/gr.168807.113⟩. ⟨hal-01837274⟩
81 View
41 Download

Altmetric

Share

Gmail Facebook Twitter LinkedIn More