@article {843956,
	title = {Identification of functional elements and regulatory circuits by Drosophila modENCODE.},
	journal = {Science},
	volume = {330},
	number = {6012},
	year = {2010},
	month = {2010 Dec 24},
	pages = {1787-97},
	abstract = {To gain insight into how genomic information is translated into cellular and developmental programs, the Drosophila model organism Encyclopedia of DNA Elements (modENCODE) project is comprehensively mapping transcripts, histone modifications, chromosomal proteins, transcription factors, replication proteins and intermediates, and nucleosome properties across a developmental time course and in multiple cell lines. We have generated more than 700 data sets and discovered protein-coding, noncoding, RNA regulatory, replication, and chromatin elements, more than tripling the annotated portion of the Drosophila genome. Correlated activity patterns of these elements reveal a functional regulatory network, which predicts putative new functions for genes, reveals stage- and tissue-specific regulators, and enables gene-expression prediction. Our results provide a foundation for directed experimental and computational studies in Drosophila and related species and also a model for systematic data integration toward comprehensive genomic and functional annotation.},
	keywords = {Animals, Binding Sites, Chromatin, Computational Biology, Drosophila melanogaster, Drosophila Proteins, Epigenesis, Genetic, Gene Expression Regulation, Gene Regulatory Networks, Genes, Insect, Genome, Insect, Genomics, Histones, Molecular Sequence Annotation, Nucleosomes, Promoter Regions, Genetic, RNA, Small Untranslated, Transcription Factors, Transcription, Genetic},
	issn = {1095-9203},
	doi = {10.1126/science.1198374},
	author = {modENCODE, and Roy, Sushmita and Ernst, Jason and Kharchenko, Peter V and Kheradpour, Pouya and Negre, Nicolas and Eaton, Matthew L and Landolin, Jane M and Bristow, Christopher A and Ma, Lijia and Lin, Michael F and Washietl, Stefan and Arshinoff, Bradley I and Ay, Ferhat and Meyer, Patrick E and Robine, Nicolas and Washington, Nicole L and Di Stefano, Luisa and Berezikov, Eugene and Brown, Christopher D and Candeias, Rogerio and Carlson, Joseph W and Carr, Adrian and Jungreis, Irwin and Marbach, Daniel and Sealfon, Rachel and Tolstorukov, Michael Y and Will, Sebastian and Alekseyenko, Artyom A and Artieri, Carlo and Booth, Benjamin W and Brooks, Angela N and Dai, Qi and Davis, Carrie A and Duff, Michael O and Feng, Xin and Gorchakov, Andrey A and Gu, Tingting and Henikoff, Jorja G and Kapranov, Philipp and Li, Renhua and MacAlpine, Heather K and Malone, John and Minoda, Aki and Nordman, Jared and Okamura, Katsutomo and Perry, Marc and Powell, Sara K and Riddle, Nicole C and Sakai, Akiko and Samsonova, Anastasia and Sandler, Jeremy E and Schwartz, Yuri B and Sher, Noa and Spokony, Rebecca and Sturgill, David and van Baren, Marijke and Wan, Kenneth H and Yang, Li and Yu, Charles and Feingold, Elise and Good, Peter and Guyer, Mark and Lowdon, Rebecca and Ahmad, Kami and Andrews, Justen and Berger, Bonnie and Brenner, Steven E and Brent, Michael R and Cherbas, Lucy and Elgin, Sarah C R and Gingeras, Thomas R and Grossman, Robert and Hoskins, Roger A and Kaufman, Thomas C and Kent, William and Kuroda, Mitzi I and Orr-Weaver, Terry and Perrimon, Norbert and Pirrotta, Vincenzo and Posakony, James W and Ren, Bing and Russell, Steven and Cherbas, Peter and Graveley, Brenton R and Lewis, Suzanna and Micklem, Gos and Oliver, Brian and Park, Peter J and Celniker, Susan E and Henikoff, Steven and Karpen, Gary H and Lai, Eric C and MacAlpine, David M and Stein, Lincoln D and White, Kevin P and Kellis, Manolis}
}
