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Sample GSM1427140 Query DataSets for GSM1427140
Status Public on Jan 01, 2015
Title RNAseq_F-shEZH2_rep3
Sample type SRA
 
Source name Human primary fetal live proerythroblasts (ProEs), shEZH2
Organism Homo sapiens
Characteristics tissue: fetal liver
cell type: CD34+ HSPC-derived proerythroblasts
shRNA: shEZH2
Treatment protocol NA
Growth protocol Primary maturing fetal liver erythroblasts were generated ex vivo using a serum-free two-phase liquid culture system.
Extracted molecule total RNA
Extraction protocol For RNA-seq analysis using the Illumina HiSeq 2500, 0.1-2 ug of total RNA was processed for library generation using the TruSeq RNA Sample Preparation v2 Kit (Illumina) following the manufacturer's protocol.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description mRNA
Data processing Sequencing reads were aligned to human genome assembly hg18 (NCBI version 36) by TopHat.
The number of reads aligned to RefSeq annotated genes' exons were counted and further normalized to be of unit RPKM (number of reads per kilobase pair per million total reads).
Differential gene expression analyses were performed using DEseq.
Genome_build: hg18 (NCBI36)
Supplementary_files_format_and_content: Tab-delimited text file of gene RPKM values.
 
Submission date Jul 03, 2014
Last update date May 15, 2019
Contact name Jian Xu
E-mail(s) Jian.Xu@UTSouthwestern.edu
Phone 214-648-6125
Organization name UT Southwestern Medical Center
Department Children's Research Institute
Street address 6000 Harry Hines Blvd. NL12.138B
City Dallas
State/province TX
ZIP/Postal code 75235
Country USA
 
Platform ID GPL16791
Series (2)
GSE59089 RNA-seq transcriptional profiling in primary human erythroid progenitor cells upon shRNA-mediated knockdown of PRC2 core subunits
GSE59090 ChIP-seq and RNA-seq analysis of PRC2 core subunits in primary human erythroid progenitor cells
Relations
BioSample SAMN02902849
SRA SRX646146

Supplementary file Size Download File type/resource
GSM1427140_F-shEZH2_rep3_refseq_gene.rpkm.gz 322.0 Kb (ftp)(http) RPKM
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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