|
| Status |
Public on Apr 17, 2017 |
| Title |
TL28 |
| Sample type |
SRA |
| |
|
| Source name |
H1 POU5F1-IRES-eGFP
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: H1 POU5F2-eGFP reporter cells
|
| Treatment protocol |
Regular hESC culture without any special treatment.
|
| Growth protocol |
Cells were cultured at 37 celsius degree in 5% CO2, in Essential 8 media (Stemcell Technologies).
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
4C-Seq library was prepared following the protocol described in van de Werken et al. 2012 (PMID: 22961246). DpnII and NlaIII were used as the 4 base cutter in 4C-Seq.
Libraries were prepared according to Illumina's instructions, using TruSeq DNA Sample Preparation Kits v2, Set A (Cat# FC-121-2001). 4-12 library preps were mixed for multiplexed single-read sequencing using Illumina Hi-seq 2000 (Illumina).
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
eGFP-/POU5F+ cells, sorted from H1 POU5F1-eGFP reporter cells after CREST-seq screen, replicate 2
|
| Data processing |
Library strategy: 4C-Seq
4C-Seq data were mapped using 4Cseqpipe (van de Werken et al., 2012) with the first cutter set as DpnII and the second cutter set as NlaIII.
Genome_build: hg18
|
| |
|
| Submission date |
Jun 13, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Bing Ren |
| Organization name |
University of California, San Diego School of Medicine
|
| Street address |
9500 Gilman Dr., CMM-East, Admin Area/Rm 2071
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92093 |
| Country |
USA |
| |
|
| Platform ID |
GPL20301 |
| Series (1) |
| GSE81026 |
Cis Regulatory Element Scan by Tiling-deletion and Sequencing |
|
| Relations |
| BioSample |
SAMN05233197 |
| SRA |
SRX1838884 |
