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Sample GSM1693786 Query DataSets for GSM1693786
Status Public on Feb 01, 2016
Title ChIP-seq - mES - Pou5f1 - 12hr KD, 7SK ASO rep1
Sample type SRA
 
Source name Embryonic Stem Cells_7SK_antisense_oligonucleotide
Organism Mus musculus
Characteristics cell type: ES cells
cell line: v6.5
gender: male
antibody: anti-Pou5f1, Santa Cruz, Cat# sc-8629
Treatment protocol All cells were fixed with 1% formaldehyde for 10 minutes at room temperature.
Growth protocol mESCs were grown on gelatin plates with serum and LIF.
Extracted molecule genomic DNA
Extraction protocol Lysates were produced from sonicated cell material and transcription factor associated DNA was enriched with specific antibodies.
Libraries were prepared according to NEBNext kit.
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina NextSeq 500
 
Description Affinity purified genomic DNA
processed data file: mm9_ChIP-seq_Pou5f1_12hr7SKASO.bw
Data processing After demultiplexing, reads were stripped adaptors and mapped to the mouse (mm9) genome using Bowtie2 and visualized as bigWig files. Peaks were called using MACS2.
Genome_build: mm9
Supplementary_files_format_and_content: bigWig files of ChIP-seq read density
 
Submission date May 21, 2015
Last update date May 15, 2019
Contact name Ryan Alexander Flynn
E-mail(s) raflynn@stanford.edu
Organization name Stanford University
Street address 380 Roth Way, Room 265
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
 
Platform ID GPL19057
Series (2)
GSE69140 7SK-BAF axis controls pervasive transcription at enhancers [ChIP-Seq]
GSE69143 7SK-BAF axis controls pervasive transcription at enhancers
Relations
BioSample SAMN03704215
SRA SRX1036412

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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