|Public on Jan 01, 2015
|Human primary fetal liver proerythroblasts (ProEs), EED ChIP
|tissue: fetal liver
cell type: CD34+ HSPC-derived proerythroblasts
chip antibody: EED (Millipore 17-10034)
|Primary maturing fetal liver erythroblasts were generated ex vivo using a serum-free two-phase liquid culture system.
|For ChIP-seq analysis using the Illumina HiSeq 2000, 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.
|Illumina HiSeq 2000
|Sequencing reads were aligned to human genome assembly hg18 (NCBI version 36) using Bowtie v0.12.7 with the following parameters: -v 2 -m 3 --strata --best. Duplicate reads were removed after the aligment with the Picard command-line tools.
Peak detection was performed with the Model-based Analysis of ChIP-Seq (MACS) algorithm (http://liulab.dfci.harvard.edu/MACS/).
The wig files were generated by a moving window of size 200bp. The tag count in the window was further normalized in unit RPKM (# read per kb per million total reads) for ChIP-seq data generated by HiSeq 2000.
Genome_build: NCBI36 (hg18)
Supplementary_files_format_and_content: Mapped read bed file, wig file, and peak bed file.
|Jul 03, 2014
|Last update date
|May 15, 2019
|UT Southwestern Medical Center
|Children's Research Institute
|6000 Harry Hines Blvd. NL12.138B
|ChIP-seq analysis of PRC2 core subunits in primary human erythroid progenitor cells
|ChIP-seq and RNA-seq analysis of PRC2 core subunits in primary human erythroid progenitor cells