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Sample GSM7152442 Query DataSets for GSM7152442
Status Public on Apr 10, 2023
Title HUDEP1 RNA [100350]
Sample type SRA
 
Source name umbilical cord blood
Organism Homo sapiens
Characteristics tissue: umbilical cord blood
cell type: Human Umbilical Cord Blood-Derived Erythroid Progenitor cell line 1, abbreviated HUDEP1, expresses gamma-globin upon induced differentiation
Extracted molecule total RNA
Extraction protocol RNA was extracted from 1 million cells, using the RNeasy Mini Kit (Qiagen).
The TruSeq Stranded mRNA Library Prep Kit (Illumina) was used to enrich for polyA+ RNA and to create libraries for HiSeq2000 sequencing (Illumina).
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 4000
 
Data processing Sequence reads were processed using the ENCODE3 long RNA-seq pipeline (https://www.encodeproject.org/pipelines/ENCPL002LPE/)
Gene set Gencode v29 was used for mapping the reads to the human genome (hg38 assembly) using STAR
Gene quantification was done via RSEM
Assembly: hg38
Supplementary files format and content: tab-separated values, TPM and counts
 
Submission date Apr 06, 2023
Last update date Jun 07, 2023
Contact name Ross Hardison
E-mail(s) rch8@psu.edu
Organization name Pennsylvania State University
Street address 303 Wartik Lab
City University Park
State/province PA
ZIP/Postal code 16802
Country USA
 
Platform ID GPL20301
Series (2)
GSE229098 Cross-species regulatory landscapes and elements revealed by novel joint systematic integration of human and mouse blood cell epigenomes [human RNA]
GSE229101 Cross-species regulatory landscapes and elements revealed by novel joint systematic integration of human and mouse blood cell epigenomes
Relations
BioSample SAMN34091148
SRA SRX19892453

Supplementary file Size Download File type/resource
GSM7152442_100350.gencodev29.tsv.gz 1.5 Mb (ftp)(http) TSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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