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Sample GSM2343109 Query DataSets for GSM2343109
Status Public on Nov 08, 2016
Title small RNA-seq from ovary (ENCLB343BMC)
Sample type SRA
 
Source name Homo sapiens ovary tissue female adult (51 year)
Organism Homo sapiens
Characteristics tissue_type: ovary
biomaterial_type: tissue
description: Ovary tissue from received by the Gingeras lab to do RNA-Seq assay on from GTEx.
biosample encode accession: ENCBS711CPB (SAMN05897475)
age: 51 year
dev stage: adult
donor_id: ENCDO271OUW
Sex: female
lab: Thomas Gingeras, CSHL
link: ENCBS711CPB at ENCODE; https://www.encodeproject.org/ENCBS711CPB/
link: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/
Extracted molecule total RNA
Extraction protocol extraction method: see document
general protocol: https://www.encodeproject.org/documents/885e7356-7956-4fa4-935a-14dea5f2603a/@@download/attachment/LID296594.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description https://www.encodeproject.org/experiments/ENCSR024CRN/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this Experiment come from tissue sub-sections of a 51 year old female's female gonad 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: ENCSR024CRN
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2016-05-03
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB343BMC
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)
GSE87965 small RNA-seq from ovary (ENCSR024CRN)
Relations
BioSample SAMN05897475
SRA SRX2244865
Named Annotation GSM2343109_ENCFF446JTI_plus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2343109_ENCFF850NJZ_plus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2343109_ENCFF710YFK_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2343109_ENCFF847PKS_minus_strand_signal_of_all_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2343109_ENCFF288VBY_gene_quantifications_GRCh38.tsv.gz 273.4 Kb (ftp)(http) TSV
GSM2343109_ENCFF419DBG_gene_quantifications_hg19.tsv.gz 255.8 Kb (ftp)(http) TSV
GSM2343109_ENCFF446JTI_plus_strand_signal_of_all_reads_GRCh38.bigWig 3.9 Mb (ftp)(http) BIGWIG
GSM2343109_ENCFF542RXK_minus_strand_signal_of_unique_reads_hg19.bigWig 566.0 Kb (ftp)(http) BIGWIG
GSM2343109_ENCFF710YFK_minus_strand_signal_of_unique_reads_GRCh38.bigWig 530.9 Kb (ftp)(http) BIGWIG
GSM2343109_ENCFF847PKS_minus_strand_signal_of_all_reads_GRCh38.bigWig 3.3 Mb (ftp)(http) BIGWIG
GSM2343109_ENCFF850NJZ_plus_strand_signal_of_unique_reads_GRCh38.bigWig 578.9 Kb (ftp)(http) BIGWIG
GSM2343109_ENCFF885VKX_plus_strand_signal_of_unique_reads_hg19.bigWig 613.6 Kb (ftp)(http) BIGWIG
GSM2343109_ENCFF904EGU_plus_strand_signal_of_all_reads_hg19.bigWig 3.4 Mb (ftp)(http) BIGWIG
GSM2343109_ENCFF909WSF_minus_strand_signal_of_all_reads_hg19.bigWig 3.4 Mb (ftp)(http) BIGWIG
GSM2343109_ENCLB343BMC_README.txt.gz 1.0 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
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