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Sample GSM2344272 Query DataSets for GSM2344272
Status Public on Nov 08, 2016
Title small RNA-seq from gastroesophageal sphincter (ENCLB742FOQ)
Sample type SRA
 
Source name Homo sapiens gastroesophageal sphincter tissue female adult (51 year)
Organism Homo sapiens
Characteristics tissue_type: gastroesophageal sphincter
biomaterial_type: tissue
description: Esophagogastric junction tissue aliquot received by the Gingeras lab to conduct RNA-Seq assays on.
biosample encode accession: ENCBS874HID (SAMN05897654)
dev stage: adult
Sex: female
donor_id: ENCDO271OUW
age: 51 year
lab: Thomas Gingeras, CSHL
link: ENCBS874HID at ENCODE; https://www.encodeproject.org/ENCBS874HID/
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/e976d2fc-7485-495b-9025-ab9e2cfebc16/@@download/attachment/LID296543.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description https://www.encodeproject.org/experiments/ENCSR866ZSG/
***************
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 esophagogastric junction 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: ENCSR866ZSG
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2016-06-13
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB742FOQ
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)
GSE88608 small RNA-seq from gastroesophageal sphincter (ENCSR866ZSG)
Relations
BioSample SAMN05897654
SRA SRX2244669
Named Annotation GSM2344272_ENCFF645UTP_plus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2344272_ENCFF152UUU_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2344272_ENCFF101ODN_minus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2344272_ENCFF863ETC_plus_strand_signal_of_unique_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2344272_ENCFF012HAE_minus_strand_signal_of_all_reads_hg19.bigWig 4.5 Mb (ftp)(http) BIGWIG
GSM2344272_ENCFF076PFL_plus_strand_signal_of_unique_reads_hg19.bigWig 617.8 Kb (ftp)(http) BIGWIG
GSM2344272_ENCFF101ODN_minus_strand_signal_of_all_reads_GRCh38.bigWig 4.3 Mb (ftp)(http) BIGWIG
GSM2344272_ENCFF152UUU_minus_strand_signal_of_unique_reads_GRCh38.bigWig 544.6 Kb (ftp)(http) BIGWIG
GSM2344272_ENCFF271ZWH_gene_quantifications_hg19.tsv.gz 252.7 Kb (ftp)(http) TSV
GSM2344272_ENCFF318HII_plus_strand_signal_of_all_reads_hg19.bigWig 4.5 Mb (ftp)(http) BIGWIG
GSM2344272_ENCFF348VFK_gene_quantifications_GRCh38.tsv.gz 269.3 Kb (ftp)(http) TSV
GSM2344272_ENCFF453LFH_minus_strand_signal_of_unique_reads_hg19.bigWig 586.8 Kb (ftp)(http) BIGWIG
GSM2344272_ENCFF645UTP_plus_strand_signal_of_all_reads_GRCh38.bigWig 4.8 Mb (ftp)(http) BIGWIG
GSM2344272_ENCFF863ETC_plus_strand_signal_of_unique_reads_GRCh38.bigWig 577.5 Kb (ftp)(http) BIGWIG
GSM2344272_ENCLB742FOQ_README.txt.gz 1013 b (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
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