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Sample GSM820617 Query DataSets for GSM820617
Status Public on Nov 23, 2011
Title CTL_Flavo_PolII_8W
Sample type SRA
Source name C2C12 myoblasts
Organism Mus musculus
Characteristics strain: C3H
cell line: C2C12 myoblasts
agent: control
chip antibody: PolII 8WG16
chip antibody vendor: Covance
chip antibody lot#: E10015AF
chip antibody catalog#: MMS-126R
Treatment protocol Control sample: These were C2C12 cells which were placed in differentiation media (DMEM + 2% horse serum + insulin-transferrin-seleniumG) for 6hrs.
Extracted molecule genomic DNA
Extraction protocol For ChIPSeq, cells were cross-linked in 1% formaldehyde and processed according to Lee, T. I., Johnstone, S. E. & Young, R. A. Chromatin immunoprecipitation and microarray-based analysis of protein location. Nat Protoc 1, 729-748 (2006). bfChIP were performed according to Kim, J., Chu, J., Shen, X., Wang, J. & Orkin, S. H. An extended transcriptional network for pluripotency of embryonic stem cells. Cell 132, 1049-1061 (2008). Purified DNA was processed according to manufacturer's protocol. For mRNASeq, Illumina protocol was followed.
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina Genome Analyzer IIx
Description Chromatin IP against PolII (Control treatment)
Data processing ChIPSeq data were mapped to the mouse genome (mm9 version) using ELAND algorithm integrated within Illumina parallel sequencing analyzer software. For mRNA-Seq, TOPHAT package was used to map the reads to the genome and spliced junctions, Trapnell, C., Pachter, L. & Salzberg, S. L. TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 25, 1105-1111 (2009).
Submission date Oct 21, 2011
Last update date May 15, 2019
Contact name Kambiz Mousavi
Phone 301-435-5648
Fax 301-480-9699
Organization name National Institutes of Health
Department National Institute of Arthritis and Musculoskeletal and Skin Diseases
Lab Laboratory of Muscle Stem Cells and Gene Regulation
Street address 50 South Drive, Room 1347
City Bethesda
State/province MD
ZIP/Postal code 20892-8024
Country USA
Platform ID GPL11002
Series (1)
GSE25549 Polycomb Protein Ezh1 Promotes RNA Polymerase II Elongation
SRA SRX101682
BioSample SAMN00739950

Supplementary file Size Download File type/resource
GSM820617_CTL_Flavo_PolII_8W.bed.gz 100.4 Mb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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