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Sample GSM2343283 Query DataSets for GSM2343283
Status Public on Nov 08, 2016
Title total RNA-seq from vagina (ENCLB757UWS)
Sample type SRA
 
Source name Homo sapiens vagina tissue female adult (53 years)
Organism Homo sapiens
Characteristics tissue_type: vagina
biomaterial_type: tissue
description: Vagina aliquot received by the Gingeras lab to conduct RNA-Seq assays on.
biosample encode accession: ENCBS158OEU (SAMN05896924)
age: 53 year
dev stage: adult
donor_id: ENCDO793LXB
Sex: female
lab: Thomas Gingeras, CSHL
link: ENCBS158OEU at ENCODE; https://www.encodeproject.org/ENCBS158OEU/
link: Derived from ENCODE donor ENCDO793LXB; https://www.encodeproject.org/ENCDO793LXB/
Extracted molecule total RNA
Extraction protocol extraction method: see document
general protocol: https://www.encodeproject.org/documents/7df88a9e-86d3-4424-9bee-07744ab7211e/@@download/attachment/296668.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description https://www.encodeproject.org/experiments/ENCSR146LBD/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this Experiment come from tissue sub-sections of a 53 year old female's vaginal 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: ENCSR146LBD
assay title: total RNA-seq
assembly: GRCh38, hg19
encode release date: 2016-08-04
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB757UWS
size range: >200
spikeins used: /references/ENCSR156CIL/
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 GPL16791
Series (1)
GSE88064 total RNA-seq from vagina (ENCSR146LBD)
Relations
BioSample SAMN05896924
SRA SRX2243703
Named Annotation GSM2343283_ENCFF627PWV_plus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2343283_ENCFF081GEL_plus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2343283_ENCFF042QTN_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2343283_ENCFF642TGI_minus_strand_signal_of_all_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2343283_ENCFF042QTN_minus_strand_signal_of_unique_reads_GRCh38.bigWig 64.1 Mb (ftp)(http) BIGWIG
GSM2343283_ENCFF046MKE_minus_strand_signal_of_unique_reads_hg19.bigWig 64.1 Mb (ftp)(http) BIGWIG
GSM2343283_ENCFF081GEL_plus_strand_signal_of_all_reads_GRCh38.bigWig 71.5 Mb (ftp)(http) BIGWIG
GSM2343283_ENCFF545OVI_plus_strand_signal_of_unique_reads_hg19.bigWig 66.4 Mb (ftp)(http) BIGWIG
GSM2343283_ENCFF581TOU_transcript_quantifications_GRCh38.tsv.gz 7.7 Mb (ftp)(http) TSV
GSM2343283_ENCFF627PWV_plus_strand_signal_of_unique_reads_GRCh38.bigWig 66.4 Mb (ftp)(http) BIGWIG
GSM2343283_ENCFF642TGI_minus_strand_signal_of_all_reads_GRCh38.bigWig 70.3 Mb (ftp)(http) BIGWIG
GSM2343283_ENCFF666UUL_plus_strand_signal_of_all_reads_hg19.bigWig 70.7 Mb (ftp)(http) BIGWIG
GSM2343283_ENCFF689CTL_minus_strand_signal_of_all_reads_hg19.bigWig 69.7 Mb (ftp)(http) BIGWIG
GSM2343283_ENCFF855LJY_gene_quantifications_hg19.tsv.gz 2.5 Mb (ftp)(http) TSV
GSM2343283_ENCFF916ODF_gene_quantifications_GRCh38.tsv.gz 2.6 Mb (ftp)(http) TSV
GSM2343283_ENCFF968GGR_transcript_quantifications_hg19.tsv.gz 7.6 Mb (ftp)(http) TSV
GSM2343283_ENCLB757UWS_README.txt.gz 1.2 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
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