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Sample GSM2072457 Query DataSets for GSM2072457
Status Public on Mar 18, 2016
Title total RNA-seq from hematopoietic multipotent progenitor cell (ENCLB555AOX)
Sample type SRA
 
Source name Homo sapiens hematopoietic multipotent progenitor primary cell male
Organism Homo sapiens
Characteristics cell_type: hematopoietic multipotent progenitor cell
biomaterial_type: primary cell
description: hematopoietic progenitor cells- mobilized, from donor RO01679.
biosample encode accession: ENCBS485ENC (SAMN04284395)
age: unknown
donor_id: ENCDO116AAA
dev stage: unknown
passage number: 2
Sex: male
health state: unknown
lab: John Stamatoyannopoulos, UW
link: ENCBS485ENC at ENCODE; https://www.encodeproject.org/ENCBS485ENC/
link: Derived from ENCODE donor ENCDO116AAA; https://www.encodeproject.org/ENCDO116AAA/
link: cell isolation protocol; https://www.encodeproject.org/documents/7507f313-98d6-4558-98a0-48f748dd0d53/@@download/attachment/CD34%2BMobilized_Stam_protocol.pdf
link: ENCODE dbxrefs CD34+_Mobilized; http://genome.cse.ucsc.edu/cgi-bin/hgEncodeVocab?ra=encode/cv.ra&term=CD34+_Mobilized
link: Heimfeld sample source; http://labs.fhcrc.org/heimfeld/index.html
Extracted molecule total RNA
Extraction protocol extraction method: see document
general protocol: https://www.encodeproject.org/documents/161a66e6-6643-45dd-aa33-ae19be5951d5/@@download/attachment/LID45901.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Description https://www.encodeproject.org/experiments/ENCSR000CUA/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this experiment come from the whole cell fraction of independent isolates of mobilized CD34+ blood progenitor cells. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.
experiment encode accession: ENCSR000CUA
assay title: total RNA-seq
assembly: GRCh38, hg19
encode release date: 2012-06-21
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB555AOX
size range: >200
spikeins used: /references/ENCSR402QNO/
Data processing See GSM*_README.txt supplementary file linked below
 
Submission date Feb 25, 2016
Last update date May 15, 2019
Contact name ENCODE DCC
E-mail(s) encode-help@lists.stanford.edu
Organization name ENCODE DCC
Street address 300 Pasteur Dr
City Stanford
State/province CA
ZIP/Postal code 94305-5120
Country USA
 
Platform ID GPL11154
Series (1)
GSE78605 total RNA-seq from hematopoietic multipotent progenitor cell (ENCSR000CUA)
Relations
Reanalyzed by GSE111163
SRA SRX1603502
BioSample SAMN04284395
Named Annotation GSM2072457_ENCFF905VXY_plus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2072457_ENCFF748HEX_minus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2072457_ENCFF044YRQ_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2072457_ENCFF319ETS_plus_strand_signal_of_unique_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2072457_ENCFF044YRQ_minus_strand_signal_of_unique_reads_GRCh38.bigWig 397.4 Mb (ftp)(http) BIGWIG
GSM2072457_ENCFF115GKV_gene_quantifications_GRCh38.tsv.gz 2.6 Mb (ftp)(http) TSV
GSM2072457_ENCFF183JVF_minus_strand_signal_of_all_reads_hg19.bigWig 383.1 Mb (ftp)(http) BIGWIG
GSM2072457_ENCFF253XCQ_plus_strand_signal_of_all_reads_hg19.bigWig 400.0 Mb (ftp)(http) BIGWIG
GSM2072457_ENCFF319ETS_plus_strand_signal_of_unique_reads_GRCh38.bigWig 416.0 Mb (ftp)(http) BIGWIG
GSM2072457_ENCFF416XVK_minus_strand_signal_of_unique_reads_hg19.bigWig 396.3 Mb (ftp)(http) BIGWIG
GSM2072457_ENCFF694OQS_minus_strand_signal_of_all_reads_hg19.bigWig 421.9 Mb (ftp)(http) BIGWIG
GSM2072457_ENCFF748HEX_minus_strand_signal_of_all_reads_GRCh38.bigWig 425.7 Mb (ftp)(http) BIGWIG
GSM2072457_ENCFF759DVG_minus_strand_signal_of_unique_reads_hg19.bigWig 364.5 Mb (ftp)(http) BIGWIG
GSM2072457_ENCFF827LOA_gene_quantifications_hg19.tsv.gz 2.5 Mb (ftp)(http) TSV
GSM2072457_ENCFF837DTL_transcript_quantifications_GRCh38.tsv.gz 7.9 Mb (ftp)(http) TSV
GSM2072457_ENCFF879MQI_plus_strand_signal_of_unique_reads_hg19.bigWig 382.9 Mb (ftp)(http) BIGWIG
GSM2072457_ENCFF905VXY_plus_strand_signal_of_all_reads_GRCh38.bigWig 442.7 Mb (ftp)(http) BIGWIG
GSM2072457_ENCFF937PBW_plus_strand_signal_of_all_reads_hg19.bigWig 438.9 Mb (ftp)(http) BIGWIG
GSM2072457_ENCFF938QGM_transcript_quantifications_hg19.tsv.gz 7.8 Mb (ftp)(http) TSV
GSM2072457_ENCFF946AOF_plus_strand_signal_of_unique_reads_hg19.bigWig 415.4 Mb (ftp)(http) BIGWIG
GSM2072457_ENCLB555AOX_README.txt.gz 1.3 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data is available on Series record

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