|
| 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) |
[email protected]
|
| 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 |
