|
Status |
Public on Feb 01, 2016 |
Title |
ChIP-seq - mES - Baf155 - 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-Baf155, Gift from Crabtree Lab
|
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_Baf155_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 |
SAMN03704219 |
SRA |
SRX1036416 |