Unknown,Transcriptomics,Genomics,Proteomics

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ModENCODE_White Lab: genome-wide ChIP data of anti-Bonus-[GP37] from E16-24h on Illumina Genome Analyzer.

ABSTRACT: This is a dataset generated by the Drosophila Regulatory Elements modENCODE Project led by Kevin P. White at the University of Chicago. It contains genome-wide binding profile of the factor anti-Bonus-[GP37] from E16-24h generated by ChIP and analyzed on Illumina Genome Analyzer. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf A validated dataset is comprised of three biological replicates for ChIP-chip experiments and two replicates for ChIP-seq and meet the modENCODE quality standards. The control sample is the chromatin Input used for ChIP. Most factors binding profiles are generated by using specific antibodies for the protein of interest. However, some factors have been tagged by GFP in a transgenic line. In that case, ChIP is generated using an anti-GFP antibody. This submission represents the ChIP-seq component of the study

ORGANISM(S): Drosophila melanogaster

SUBMITTER: Jason Grundstad 

PROVIDER: E-GEOD-25921 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

A cis-regulatory map of the Drosophila genome.

Nègre Nicolas N   Brown Christopher D CD   Ma Lijia L   Bristow Christopher Aaron CA   Miller Steven W SW   Wagner Ulrich U   Kheradpour Pouya P   Eaton Matthew L ML   Loriaux Paul P   Sealfon Rachel R   Li Zirong Z   Ishii Haruhiko H   Spokony Rebecca F RF   Chen Jia J   Hwang Lindsay L   Cheng Chao C   Auburn Richard P RP   Davis Melissa B MB   Domanus Marc M   Shah Parantu K PK   Morrison Carolyn A CA   Zieba Jennifer J   Suchy Sarah S   Senderowicz Lionel L   Victorsen Alec A   Bild Nicholas A NA   Grundstad A Jason AJ   Hanley David D   MacAlpine David M DM   Mannervik Mattias M   Venken Koen K   Bellen Hugo H   White Robert R   Gerstein Mark M   Russell Steven S   Grossman Robert L RL   Ren Bing B   Posakony James W JW   Kellis Manolis M   White Kevin P KP  

Nature 20110301 7339

Systematic annotation of gene regulatory elements is a major challenge in genome science. Direct mapping of chromatin modification marks and transcriptional factor binding sites genome-wide has successfully identified specific subtypes of regulatory elements. In Drosophila several pioneering studies have provided genome-wide identification of Polycomb response elements, chromatin states, transcription factor binding sites, RNA polymerase II regulation and insulator elements; however, comprehensi  ...[more]

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