Comprehensive analysis of the chromatin landscape in Drosophila melanogaster

Peter V. Kharchenko, Artyom A. Alekseyenko, Yuri B. Schwartz, Aki Minoda, Nicole C. Riddle, Jason Ernst, Peter J. Sabo, Erica Larschan, Andrey A. Gorchakov, Tingting Gu, Daniela Linder-Basso, Annette Plachetka, Gregory Shanower, Michael Y. Tolstorukov, Lovelace J. Luquette, Ruibin Xi, Youngsook L. Jung, Richard W. Park, Eric P. Bishop, Theresa K. Canfield, Richard Sandstrom, Robert E. Thurman, David M. MacAlpine, John A. Stamatoyannopoulos, Manolis Kellis, Sarah C. R. Elgin, Mitzi I. Kuroda, Vincenzo Pirrotta, Gary H. Karpen () and Peter J. Park ()
Additional contact information
Peter V. Kharchenko: Center for Biomedical Informatics, Harvard Medical School
Artyom A. Alekseyenko: Brigham & Women’s Hospital
Yuri B. Schwartz: Rutgers University
Aki Minoda: University of California at Berkeley, Lawrence Berkeley National Lab
Nicole C. Riddle: Washington University in St Louis
Jason Ernst: MIT Computer Science and Artificial Intelligence Laboratory
Peter J. Sabo: University of Washington
Erica Larschan: Brigham & Women’s Hospital
Andrey A. Gorchakov: Brigham & Women’s Hospital
Tingting Gu: Washington University in St Louis
Daniela Linder-Basso: Rutgers University
Annette Plachetka: Brigham & Women’s Hospital
Gregory Shanower: Rutgers University
Michael Y. Tolstorukov: Center for Biomedical Informatics, Harvard Medical School
Lovelace J. Luquette: Center for Biomedical Informatics, Harvard Medical School
Ruibin Xi: Center for Biomedical Informatics, Harvard Medical School
Youngsook L. Jung: Center for Biomedical Informatics, Harvard Medical School
Richard W. Park: Center for Biomedical Informatics, Harvard Medical School
Eric P. Bishop: Center for Biomedical Informatics, Harvard Medical School
Theresa K. Canfield: University of Washington
Richard Sandstrom: University of Washington
Robert E. Thurman: University of Washington
David M. MacAlpine: Duke University Medical Center
John A. Stamatoyannopoulos: University of Washington
Manolis Kellis: MIT Computer Science and Artificial Intelligence Laboratory
Sarah C. R. Elgin: Washington University in St Louis
Mitzi I. Kuroda: Brigham & Women’s Hospital
Vincenzo Pirrotta: Rutgers University
Gary H. Karpen: University of California at Berkeley, Lawrence Berkeley National Lab
Peter J. Park: Center for Biomedical Informatics, Harvard Medical School

Nature, 2011, vol. 471, issue 7339, 480-485

Abstract: Abstract 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.

Date: 2011
References: Add references at CitEc
Citations: View citations in EconPapers (1)

Downloads: (external link)
https://www.nature.com/articles/nature09725 Abstract (text/html)
Access to the full text of the articles in this series is restricted.

Related works:
This item may be available elsewhere in EconPapers: Search for items with the same title.

Export reference: BibTeX RIS (EndNote, ProCite, RefMan) HTML/Text

Persistent link: https://EconPapers.repec.org/RePEc:nat:nature:v:471:y:2011:i:7339:d:10.1038_nature09725

Ordering information: This journal article can be ordered from
https://www.nature.com/

DOI: 10.1038/nature09725

Access Statistics for this article

Nature is currently edited by Magdalena Skipper

More articles in Nature from Nature
Bibliographic data for series maintained by Sonal Shukla () and Springer Nature Abstracting and Indexing ().