|
| Status |
Public on Oct 04, 2012 |
| Title |
GATA1-F |
| Sample type |
SRA |
| |
|
| Source name |
Human primary fetal proerythroblasts (ProEs)
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: CD34+ HSPC-derived proerythroblasts
developmental stage: 2-trimester fetal liver
chip antibody: GATA1
vendor: Abcam
catalog#: ab11852
|
| Growth protocol |
Primary maturing fetal or adult erythroblasts were generated ex vivo using a serum-free two-phase liquid culture system.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
For ChIP-seq analysis using the Illumin HiSeq2000, 10-20 ng of ChIP DNA was processed for library generation using the ChIP-seq Sample Preparation Kit (Illumina) following the manufacturer’s protocol. Raw ChIP-seq data were processed using the Illumina software pipeline. Only ChIP-seq reads that aligned to exactly one location in the reference human genome (UCSC, hg18) were retained for downstream data analysis.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Sequencing reads were aligned to human genome assembly hg18 (NCBI version 36) using Illumina software pipeline. Only ChIP-seq reads that aligned to exactly one location in the reference human genome (UCSC, hg18) were retained for downstream data analysis.
Peak detection was performed with the Model-based Analysis of ChIP-Seq (MACS) algorithm (http://liulab.dfci.harvard.edu/MACS/).
Genome_build: hg18
Supplementary_files_format_and_content: Mapped read bed file, wig file, and peak bed file
|
| |
|
| Submission date |
Jul 19, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Jian Xu |
| E-mail(s) |
Jian.Xu@stjude.org
|
| Phone |
9015955208
|
| Organization name |
St. Jude Children's Research Hospital
|
| Department |
Pathology
|
| Street address |
262 Danny Thomas Place, MS 345
|
| City |
Memphis |
| State/province |
Tennessee |
| ZIP/Postal code |
38105 |
| Country |
USA |
| |
|
| Platform ID |
GPL11154 |
| Series (2) |
| GSE36985 |
Comparative profiling of chromatin state maps and transcription factor occupancy during human fetal and adult erythropoiesis |
| GSE36994 |
Comparative profiling of human fetal and adult erythropoiesis |
|
| Relations |
| SRA |
SRX160843 |
| BioSample |
SAMN01091707 |
