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Series GSE2954 Query DataSets for GSE2954
Status Public on Sep 01, 2005
Title Single-nucleosome mapping of histone modifications in S. cerevisiae
Organism Saccharomyces cerevisiae
Experiment type Genome binding/occupancy profiling by genome tiling array
Summary We have used a high-resolution tiled microarray, with single-nucleosome resolution, to investigate the in vivo occurrence of combinations of 12 histone modifications on thousands of nucleosomes in actively growing S. cerevisiae. We found that histone modifications do not occur independently; there are roughly two groups of co-occurring modifications. We find no evidence for a deterministic code of many discrete states, but instead see blended, continuous patterns that distinguish nucleosomes at one location (promoter nucleosomes, for example) from those at another location (over the 3’ ends of coding regions, for example). These results are consistent with the idea of a simple, redundant histone code, in which multiple modifications share the same role.
Keywords: ChIP-chip
 
Overall design In mid-log phase S. cerevisiae, we performed ChIP-chip on 12 different histone modifications and compared their enrichment levels within the genome based on nucleosome position data in series GSE2563. Each TLAD-amplified ChIP sample was labeled with Cy5 and hybridized against Cy3-labeled, TLAD-amplified input on oligonucleotide tiling arrays. At least 3 biological/technical replicates were performed per epitope, with more than one technical replicate for some of the biological replicates, for a total of 64 arrays.
 
Contributor(s) Liu C, Kaplan T, Kim M, Buratowski S, Schreiber SL, Friedman N, Rando OJ
Citation(s) 16122352
Submission date Jul 16, 2005
Last update date Mar 16, 2012
Contact name Oliver Rando
E-mail(s) Oliver.Rando@umassmed.edu
Phone 508-856-8879
Organization name UMass Medical School
Street address 364 Plantation St.
City Worcester
State/province MA
ZIP/Postal code 01605-4321
Country USA
 
Platforms (2)
GPL2625 yeast_nucleosome_positioning_microarray 6-9
GPL2626 yeast_nucleosome_positioning_microarray 10+
Samples (64)
GSM64526 H4K16Ac_Grunstein Replicate 1 vs input | array 11_121
GSM64527 H3K18Ac Replicate 1 vs input | array 11_122
GSM64528 H2A.Z Replicate 1 vs input | array 11_123
Relations
BioProject PRJNA92431

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