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Sample GSM2343518 Query DataSets for GSM2343518
Status Public on Nov 08, 2016
Title small RNA-seq from esophagus squamous epithelium (ENCLB348RNP)
Sample type SRA
 
Source name Homo sapiens esophagus squamous epithelium tissue male adult (37 years)
Organism Homo sapiens
Characteristics tissue_type: esophagus squamous epithelium
biomaterial_type: tissue
description: Esophagus mucosa tissue aliquot received by the Gingeras lab to conduct RNA-Seq assays on.
biosample encode accession: ENCBS903FMK (SAMN05897683)
dev stage: adult
Sex: male
donor_id: ENCDO845WKR
age: 37 year
lab: Thomas Gingeras, CSHL
link: ENCBS903FMK at ENCODE; https://www.encodeproject.org/ENCBS903FMK/
link: Derived from ENCODE donor ENCDO845WKR; https://www.encodeproject.org/ENCDO845WKR/
Extracted molecule total RNA
Extraction protocol extraction method: see document
general protocol: https://www.encodeproject.org/documents/85256c4d-28b7-4bbc-b523-4316afb60d7b/@@download/attachment/LID296582.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description https://www.encodeproject.org/experiments/ENCSR289GGY/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this Experiment come from tissue sub-sections of a 37 year old male's esophagus mucosa 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: ENCSR289GGY
assay title: small RNA-seq
assembly: hg19, GRCh38
encode release date: 2016-05-03
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB348RNP
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)
GSE88164 small RNA-seq from esophagus squamous epithelium (ENCSR289GGY)
Relations
BioSample SAMN05897683
SRA SRX2243892
Named Annotation GSM2343518_ENCFF167JWJ_plus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2343518_ENCFF461CVY_minus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2343518_ENCFF968PSG_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2343518_ENCFF573AOL_plus_strand_signal_of_unique_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2343518_ENCFF080FXB_plus_strand_signal_of_all_reads_hg19.bigWig 8.7 Mb (ftp)(http) BIGWIG
GSM2343518_ENCFF143PXA_gene_quantifications_hg19.tsv.gz 269.6 Kb (ftp)(http) TSV
GSM2343518_ENCFF167JWJ_plus_strand_signal_of_all_reads_GRCh38.bigWig 8.9 Mb (ftp)(http) BIGWIG
GSM2343518_ENCFF208TWS_minus_strand_signal_of_unique_reads_hg19.bigWig 1.2 Mb (ftp)(http) BIGWIG
GSM2343518_ENCFF461CVY_minus_strand_signal_of_all_reads_GRCh38.bigWig 8.3 Mb (ftp)(http) BIGWIG
GSM2343518_ENCFF573AOL_plus_strand_signal_of_unique_reads_GRCh38.bigWig 1.2 Mb (ftp)(http) BIGWIG
GSM2343518_ENCFF621LLS_plus_strand_signal_of_unique_reads_hg19.bigWig 1.3 Mb (ftp)(http) BIGWIG
GSM2343518_ENCFF739FTB_minus_strand_signal_of_all_reads_hg19.bigWig 8.7 Mb (ftp)(http) BIGWIG
GSM2343518_ENCFF781DDW_gene_quantifications_GRCh38.tsv.gz 283.8 Kb (ftp)(http) TSV
GSM2343518_ENCFF968PSG_minus_strand_signal_of_unique_reads_GRCh38.bigWig 1.1 Mb (ftp)(http) BIGWIG
GSM2343518_ENCLB348RNP_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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