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Sample GSM2343270 Query DataSets for GSM2343270
Status Public on Nov 08, 2016
Title small RNA-seq from stomach (ENCLB898TCC)
Sample type SRA
 
Source name Homo sapiens stomach tissue male adult (54 years)
Organism Homo sapiens
Characteristics tissue_type: stomach
biomaterial_type: tissue
description: Stomach aliquot received by the Gingeras lab to conduct RNA-Seq assays on.
biosample encode accession: ENCBS141UOA (SAMN05896901)
age: 54 year
dev stage: adult
donor_id: ENCDO451RUA
Sex: male
lab: Thomas Gingeras, CSHL
link: ENCBS141UOA at ENCODE; https://www.encodeproject.org/ENCBS141UOA/
link: Derived from ENCODE donor ENCDO451RUA; https://www.encodeproject.org/ENCDO451RUA/
Extracted molecule total RNA
Extraction protocol extraction method: see document
general protocol: https://www.encodeproject.org/documents/3e794044-654d-4100-bab1-d0875dbefdb5/@@download/attachment/LID296625.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description https://www.encodeproject.org/experiments/ENCSR133GQJ/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this Experiment come from tissue sub-sections of a 54 year old male's stomach tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size.
experiment encode accession: ENCSR133GQJ
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2016-05-23
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB898TCC
size range: <200
Data processing See GSM*_README.txt supplementary file linked below
 
Submission date Oct 13, 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 GPL18573
Series (1)
GSE88057 small RNA-seq from stomach (ENCSR133GQJ)
Relations
BioSample SAMN05896901
SRA SRX2243690
Named Annotation GSM2343270_ENCFF692RXE_minus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2343270_ENCFF011BLO_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2343270_ENCFF545XSK_plus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2343270_ENCFF658LSZ_plus_strand_signal_of_all_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2343270_ENCFF011BLO_minus_strand_signal_of_unique_reads_GRCh38.bigWig 671.3 Kb (ftp)(http) BIGWIG
GSM2343270_ENCFF111RUR_plus_strand_signal_of_unique_reads_hg19.bigWig 773.9 Kb (ftp)(http) BIGWIG
GSM2343270_ENCFF484GLG_gene_quantifications_GRCh38.tsv.gz 279.2 Kb (ftp)(http) TSV
GSM2343270_ENCFF504NYY_minus_strand_signal_of_all_reads_hg19.bigWig 4.6 Mb (ftp)(http) BIGWIG
GSM2343270_ENCFF545XSK_plus_strand_signal_of_unique_reads_GRCh38.bigWig 720.9 Kb (ftp)(http) BIGWIG
GSM2343270_ENCFF647XYE_gene_quantifications_hg19.tsv.gz 264.6 Kb (ftp)(http) TSV
GSM2343270_ENCFF658LSZ_plus_strand_signal_of_all_reads_GRCh38.bigWig 5.0 Mb (ftp)(http) BIGWIG
GSM2343270_ENCFF692RXE_minus_strand_signal_of_all_reads_GRCh38.bigWig 4.3 Mb (ftp)(http) BIGWIG
GSM2343270_ENCFF747JFU_plus_strand_signal_of_all_reads_hg19.bigWig 4.7 Mb (ftp)(http) BIGWIG
GSM2343270_ENCFF945ZFX_minus_strand_signal_of_unique_reads_hg19.bigWig 721.8 Kb (ftp)(http) BIGWIG
GSM2343270_ENCLB898TCC_README.txt.gz 1018 b (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
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