Comprehensive analysis of the chromatin landscape in Drosophila melanogaster
Chromatin is composed of DNA and a variety of modified histones and non-histone proteins, which have an impact on cell differentiation, gene regulation and other key cellular processes. Here we present a genome-wide chromatin landscape for Drosophila melanogaster based on eighteen histone modificati...
| Main Authors: | , |
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| Other Authors: | |
| Format: | Article |
| Language: | en_US |
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Nature Publishing Group
2012
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| Online Access: | http://hdl.handle.net/1721.1/73920 |
| _version_ | 1811081037974863872 |
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| author | Ernst, Jason Kellis, Manolis |
| author2 | Massachusetts Institute of Technology. Computer Science and Artificial Intelligence Laboratory |
| author_facet | Massachusetts Institute of Technology. Computer Science and Artificial Intelligence Laboratory Ernst, Jason Kellis, Manolis |
| author_sort | Ernst, Jason |
| collection | MIT |
| description | Chromatin is composed of DNA and a variety of modified histones and non-histone proteins, which have an impact on cell differentiation, gene regulation and other key cellular processes. Here we present a genome-wide chromatin landscape for Drosophila melanogaster based on eighteen histone modifications, summarized by nine prevalent combinatorial patterns. Integrative analysis with other data (non-histone chromatin proteins, DNase I hypersensitivity, GRO-Seq reads produced by engaged polymerase, short/long RNA products) reveals discrete characteristics of chromosomes, genes, regulatory elements and other functional domains. We find that active genes display distinct chromatin signatures that are correlated with disparate gene lengths, exon patterns, regulatory functions and genomic contexts. We also demonstrate a diversity of signatures among Polycomb targets that include a subset with paused polymerase. This systematic profiling and integrative analysis of chromatin signatures provides insights into how genomic elements are regulated, and will serve as a resource for future experimental investigations of genome structure and function. |
| first_indexed | 2024-09-23T11:40:45Z |
| format | Article |
| id | mit-1721.1/73920 |
| institution | Massachusetts Institute of Technology |
| language | en_US |
| last_indexed | 2024-09-23T11:40:45Z |
| publishDate | 2012 |
| publisher | Nature Publishing Group |
| record_format | dspace |
| spelling | mit-1721.1/739202022-10-01T05:13:22Z Comprehensive analysis of the chromatin landscape in Drosophila melanogaster Ernst, Jason Kellis, Manolis Massachusetts Institute of Technology. Computer Science and Artificial Intelligence Laboratory Massachusetts Institute of Technology. Department of Electrical Engineering and Computer Science Ernst, Jason Kellis, Manolis Chromatin is composed of DNA and a variety of modified histones and non-histone proteins, which have an impact on cell differentiation, gene regulation and other key cellular processes. Here we present a genome-wide chromatin landscape for Drosophila melanogaster based on eighteen histone modifications, summarized by nine prevalent combinatorial patterns. Integrative analysis with other data (non-histone chromatin proteins, DNase I hypersensitivity, GRO-Seq reads produced by engaged polymerase, short/long RNA products) reveals discrete characteristics of chromosomes, genes, regulatory elements and other functional domains. We find that active genes display distinct chromatin signatures that are correlated with disparate gene lengths, exon patterns, regulatory functions and genomic contexts. We also demonstrate a diversity of signatures among Polycomb targets that include a subset with paused polymerase. This systematic profiling and integrative analysis of chromatin signatures provides insights into how genomic elements are regulated, and will serve as a resource for future experimental investigations of genome structure and function. United States. Dept. of Energy (Contract DE-AC02-05CH11231) RC2 HG005639 U01 HG004279 R01 GM082798 R37 GM45744 R37 GM45744 R01 GM071923 U54 HG004592 National Science Foundation (U.S.) (NSF 0905968) 2012-10-12T14:52:11Z 2012-10-12T14:52:11Z 2010-12 2010-12 Article http://purl.org/eprint/type/JournalArticle 0028-0836 1476-4687 http://hdl.handle.net/1721.1/73920 Kharchenko, Peter V. et al. “Comprehensive Analysis of the Chromatin Landscape in Drosophila Melanogaster.” Nature 471.7339 (2010): 480–485. en_US http://dx.doi.org/10.1038/nature09725 Nature Creative Commons Attribution-Noncommercial-Share Alike 3.0 http://creativecommons.org/licenses/by-nc-sa/3.0/ application/pdf Nature Publishing Group PubMed Central |
| spellingShingle | Ernst, Jason Kellis, Manolis Comprehensive analysis of the chromatin landscape in Drosophila melanogaster |
| title | Comprehensive analysis of the chromatin landscape in Drosophila melanogaster |
| title_full | Comprehensive analysis of the chromatin landscape in Drosophila melanogaster |
| title_fullStr | Comprehensive analysis of the chromatin landscape in Drosophila melanogaster |
| title_full_unstemmed | Comprehensive analysis of the chromatin landscape in Drosophila melanogaster |
| title_short | Comprehensive analysis of the chromatin landscape in Drosophila melanogaster |
| title_sort | comprehensive analysis of the chromatin landscape in drosophila melanogaster |
| url | http://hdl.handle.net/1721.1/73920 |
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