|
| Status |
Public on Jul 01, 2012 |
| Title |
RenLab-CTCF-testis |
| Sample type |
SRA |
| |
|
| Source name |
Mouse testis
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57Bl/6
antibody: Kim et al., 2007
|
| Treatment protocol |
None
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
See http://bioinformatics-renlab.ucsd.edu/RenLabLibraryProtocolV1.pdf
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
CTCF IP
|
| Data processing |
fastq: Illumina's Genome Analyzer Pipeline
bowtie files: Alignment to mm9 using Bowtie with a seed length of 32 bases and up to 2 mismatches. Only sequences mapping to exactly one location were kept.
ELAND files: Alignment to mm9 using ELAND with a seed length of 25 bases and up to 2 mismatches. Only sequences mapping to exactly one location were kept.
|
| |
|
| Submission date |
Dec 20, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Bing Ren |
| E-mail(s) |
[email protected]
|
| Organization name |
University of California, San Diego
|
| Street address |
9500 Gilman Drive
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92093 |
| Country |
USA |
| |
|
| Platform ID |
GPL13112 |
| Series (2) |
| GSE29184 |
A draft map of cis-regulatory sequences in the mouse genome |
| GSE29218 |
A draft map of cis-regulatory sequences in the mouse genome [ChIP-Seq] |
|
| Relations |
| SRA |
SRX112972 |
| BioSample |
SAMN00768146 |
