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SRX012349: GSM437544: Methyl-Seq_human T cells
10 ILLUMINA (Illumina Genome Analyzer) runs: 71.8M spots, 2.6G bases, 1.5Gb downloads

Accession: SRX012349
Experiment design: n/a
Submitted by: GEO
Study summary: SRP001352 • Nucleosome deposition and DNA methylation at coding region boundaries • PRJNA118651 • All experiments  • Run Selector (more...)(less...)
Abstract: We profiled CpG methylation for human T cells and compared this pattern with public T cell nucleosome (H2A.Z) and polymerase II profiles (SRA000234). Focusing on DNA regions surrounding the start codon and stop codon, instead of the transcription start and end sites, we discovered a very intriguing pattern, namely methylation and nucleosomal peaks at those regions, more prominent than peaks near transcript boundaries. Elongating polymerases tend to pause near both coding ends immediately upstream of the epigenetic peaks, causing a significant reduction in elongation efficiency, suggesting their role in control of RNA splicing. Conserved features in underlying protein coding sequences seem to dictate their evolutionary conservation across multiple species. The nucleosomal and methylation marks are commonly associated with high sequence-encoded DNA-bending propensity but differentially with CpG density. Keywords: Epigenetics Overall design: Sample submission examines CpG methylation from human T cells.
Center Project: GSE17554
Sample: SAMN00004613 • Methyl-Seq_human T cells (more...)(less...)
Organism: Homo sapiens
Attributes:
T cells
CD4+ T cells
Generic
External link:
Library: Methyl-Seq_human T cells  (more...)(less...)
Strategy: OTHER
Source: GENOMIC
Selection: other
Layout: SINGLE
Platform: Illumina  (more...)(less...)
Instrument model: Illumina Genome Analyzer
Spot descriptor:
forward

Experiment attributes:
GEO Accession: GSM437544
Total: 10 runs, 71.8M spots, 2.6G bases, 1.5Gb 
#Run# of Spots# of BasesSize
1. SRR0292988,079,141290.8M178.2Mb
2. SRR0292996,298,285226.7M120.1Mb
3. SRR0293006,059,446218.1M116.5Mb
4. SRR0293015,839,005210.2M108.5Mb
5. SRR02930211,998,471431.9M304.7Mb
6. SRR0293032,015,23672.5M37.4Mb
7. SRR0293042,669,94896.1M48Mb
8. SRR0293056,636,319238.9M138.9Mb
9. SRR0293066,301,649226.9M90.1Mb
10. SRR02930715,943,252574M442Mb

ID:
12660

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