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Sample GSM1693778 Query DataSets for GSM1693778
Status Public on Feb 01, 2016
Title ATAC-seq - mES - 12hr KD, Control ASO rep1
Sample type SRA
Source name Embryonic Stem Cells_control_antisense_oligonucleotides
Organism Mus musculus
Characteristics cell type: ES cells
cell line: v6.5
gender: male
Treatment protocol Cells were depleted of 7SK by nucleofecting antisense oligonucleotides for 12 hours and chromatin state was assayed by transposase
Growth protocol mES cells were grown on gelatin plates with serum and LIF.
Extracted molecule genomic DNA
Extraction protocol Transposed DNA was isolated using MinElute Spin columns (Qiagen)
Paired-end libraries were generated as previously described (PMID: 24097267)
Library strategy OTHER
Library source genomic
Library selection other
Instrument model Illumina NextSeq 500
Description DNA from open and chromatinized DNA
processed data file:
Data processing Library strategy: ATAC-seq
After demultiplexing, reads were stripped adaptors, mapped to the mouse genome (mm9) and processed as previously described (PMID: 24097267)
Genome_build: mm9
Supplementary_files_format_and_content: bigWig files of merged biological replicates of ATAC-seq experiments
Submission date May 21, 2015
Last update date May 15, 2019
Contact name Ryan Alexander Flynn
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)
GSE69139 7SK-BAF axis controls pervasive transcription at enhancers [ATAC-Seq]
GSE69143 7SK-BAF axis controls pervasive transcription at enhancers
BioSample SAMN03704226
SRA SRX1036423

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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