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Sample GSM2400152 Query DataSets for GSM2400152
Status Public on Dec 07, 2016
Title polyA mRNA RNA-seq from H1-hESC (ENCLB555AMA)
Sample type SRA
 
Source name Homo sapiens H1-hESC stem cell male embryo
Organism Homo sapiens
Characteristics cell_type: H1-hESC
biomaterial_type: stem cell
description: embryonic stem cells
biosample encode accession: ENCBS731AAA (SAMN06044728)
dev stage: embryonic
Sex: male
donor_id: ENCDO000AAW
age: unknown
health state: healthy
lab: Thomas Gingeras, CSHL
link: ENCBS731AAA at ENCODE; https://www.encodeproject.org/ENCBS731AAA/
link: Derived from ENCODE donor ENCDO000AAW; https://www.encodeproject.org/ENCDO000AAW/
link: ENCODE dbxrefs Cellosaurus CVCL_9771; http://web.expasy.org/cellosaurus/CVCL_9771
link: ENCODE dbxrefs H1-hESC; http://genome.cse.ucsc.edu/cgi-bin/hgEncodeVocab?ra=encode/cv.ra&term=H1-hESC
Extracted molecule total RNA
Extraction protocol extraction method: see document
general protocol: https://www.encodeproject.org/documents/2828ba15-f9d5-4bce-ad3c-0a7f6a18a6e5/@@download/attachment/LID8461.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina Genome Analyzer IIx
 
Description https://www.encodeproject.org/experiments/ENCSR000COU/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this experiment come from the whole cell fraction of independent growths of the human embryonic stem cell line H1-hESC. They are stranded PE76 Illumina GAIIx RNA-Seq libraries from rRNA-depleted Poly-A+ RNA > 200 nucleotides in size.
experiment encode accession: ENCSR000COU
assay title: polyA mRNA RNA-seq
assembly: GRCh38, hg19
encode release date: 2011-10-17
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB555AMA
size range: >200
spikeins used: /references/ENCSR402QNO/
Data processing See GSM*_README.txt supplementary file linked below
 
Submission date Nov 22, 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 GPL10999
Series (1)
GSE90225 polyA mRNA RNA-seq from H1-hESC (ENCSR000COU)
Relations
BioSample SAMN06044728
SRA SRX2370468
Named Annotation GSM2400152_ENCFF485AOP_plus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2400152_ENCFF090ABV_minus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2400152_ENCFF142LNT_plus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2400152_ENCFF801APS_minus_strand_signal_of_unique_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2400152_ENCFF045NOY_gene_quantifications_hg19.tsv.gz 2.6 Mb (ftp)(http) TSV
GSM2400152_ENCFF090ABV_minus_strand_signal_of_all_reads_GRCh38.bigWig 195.3 Mb (ftp)(http) BIGWIG
GSM2400152_ENCFF142LNT_plus_strand_signal_of_all_reads_GRCh38.bigWig 204.5 Mb (ftp)(http) BIGWIG
GSM2400152_ENCFF354QYX_plus_strand_signal_of_unique_reads_hg19.bigWig 183.9 Mb (ftp)(http) BIGWIG
GSM2400152_ENCFF359YHK_minus_strand_signal_of_all_reads_hg19.bigWig 194.8 Mb (ftp)(http) BIGWIG
GSM2400152_ENCFF479AZO_transcript_quantifications_GRCh38.tsv.gz 8.1 Mb (ftp)(http) TSV
GSM2400152_ENCFF485AOP_plus_strand_signal_of_unique_reads_GRCh38.bigWig 183.8 Mb (ftp)(http) BIGWIG
GSM2400152_ENCFF653XHG_gene_quantifications_GRCh38.tsv.gz 2.7 Mb (ftp)(http) TSV
GSM2400152_ENCFF662GOU_transcript_quantifications_hg19.tsv.gz 7.9 Mb (ftp)(http) TSV
GSM2400152_ENCFF713JAG_minus_strand_signal_of_unique_reads_hg19.bigWig 173.7 Mb (ftp)(http) BIGWIG
GSM2400152_ENCFF801APS_minus_strand_signal_of_unique_reads_GRCh38.bigWig 173.9 Mb (ftp)(http) BIGWIG
GSM2400152_ENCFF824LWJ_plus_strand_signal_of_all_reads_hg19.bigWig 203.5 Mb (ftp)(http) BIGWIG
GSM2400152_ENCLB555AMA_README.txt.gz 1.9 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data is available on Series record
Processed data provided as supplementary file

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