|
| Status |
Public on Sep 05, 2011 |
| Title |
RNA pol II ChIP-seq in control cells |
| Sample type |
SRA |
| |
|
| Source name |
Hela
|
| Organism |
Homo sapiens |
| Characteristics |
growth protocol: DMEM 10% FCS, no methanol
chip antibody: rabbit anti pan CTD (Schroeder et al. Genes Dev. 14:2435, 2000)
|
| Treatment protocol |
Cells were treated with spliceostatin A (20ng/ml) for 12 hr
|
| Growth protocol |
cells were grown in DMEM 10% FCS
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
IPs from 2 mg of cross-linked extract were immunoprecipitated, and prepared for illumina library construction by repair with Klenow, T4 DNA polymerase and T4 polynucleotide kinase, A-tailing with Klenow exo-, ligation to branched adaptors, gel purification of ~200bp fragments, and amplification (18cycles) with Illumina PE primers using Phusion DNA polymerase.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer IIx |
| |
|
| Description |
Chromatin IP against RNA pol II
barcode: CTT
|
| Data processing |
Single-end 34 base reads (after removing barcodes) were mapped to the hg18 UCSC human genome (Mar. 2006) with Bowtie version 0.12.5
|
| |
|
| Submission date |
Jul 25, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
David Bentley |
| E-mail(s) |
david.bentley@UCHSC.edu
|
| Organization name |
UCHSC
|
| Street address |
17801 E. 17th Ave
|
| City |
Aurora |
| State/province |
CO |
| ZIP/Postal code |
80010 |
| Country |
USA |
| |
|
| Platform ID |
GPL10999 |
| Series (1) |
| GSE30895 |
Effect of splicing on histone H3 K36 methylation |
|
| Relations |
| Affiliated with |
GSE36185 |
| SRA |
SRX084796 |
| BioSample |
SAMN00672672 |
