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Sample GSM2344087 Query DataSets for GSM2344087
Status Public on Nov 08, 2016
Title total RNA-seq from gastroesophageal sphincter (ENCLB414WBQ)
Sample type SRA
Source name Homo sapiens gastroesophageal sphincter tissue female adult (53 years)
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: ENCBS616IQR (SAMN05897374)
age: 53 year
dev stage: adult
donor_id: ENCDO793LXB
Sex: female
lab: Thomas Gingeras, CSHL
link: ENCBS616IQR at ENCODE;
link: Derived from ENCODE donor ENCDO793LXB;
Extracted molecule total RNA
Extraction protocol extraction method: see document
general protocol:
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this Experiment come from tissue sub-sections from the esophagogastric junction 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: ENCSR740YMS
assay title: total RNA-seq
assembly: GRCh38, hg19
encode release date: 2016-02-18
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB414WBQ
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
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)
GSE88501 total RNA-seq from gastroesophageal sphincter (ENCSR740YMS)
BioSample SAMN05897374
SRA SRX2244504
Named Annotation GSM2344087_ENCFF461YEE_plus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2344087_ENCFF203IBV_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2344087_ENCFF373KTQ_plus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2344087_ENCFF970UKB_minus_strand_signal_of_all_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2344087_ENCFF203IBV_minus_strand_signal_of_unique_reads_GRCh38.bigWig 52.1 Mb (ftp)(http) BIGWIG
GSM2344087_ENCFF251EBM_minus_strand_signal_of_unique_reads_hg19.bigWig 52.0 Mb (ftp)(http) BIGWIG
GSM2344087_ENCFF296EYT_plus_strand_signal_of_all_reads_hg19.bigWig 56.3 Mb (ftp)(http) BIGWIG
GSM2344087_ENCFF373KTQ_plus_strand_signal_of_unique_reads_GRCh38.bigWig 53.3 Mb (ftp)(http) BIGWIG
GSM2344087_ENCFF440IKM_gene_quantifications_GRCh38.tsv.gz 2.6 Mb (ftp)(http) TSV
GSM2344087_ENCFF461YEE_plus_strand_signal_of_all_reads_GRCh38.bigWig 57.0 Mb (ftp)(http) BIGWIG
GSM2344087_ENCFF603QTK_plus_strand_signal_of_unique_reads_hg19.bigWig 53.3 Mb (ftp)(http) BIGWIG
GSM2344087_ENCFF749AJA_gene_quantifications_hg19.tsv.gz 2.5 Mb (ftp)(http) TSV
GSM2344087_ENCFF815MRJ_transcript_quantifications_GRCh38.tsv.gz 7.6 Mb (ftp)(http) TSV
GSM2344087_ENCFF835OBP_transcript_quantifications_hg19.tsv.gz 7.5 Mb (ftp)(http) TSV
GSM2344087_ENCFF970UKB_minus_strand_signal_of_all_reads_GRCh38.bigWig 55.7 Mb (ftp)(http) BIGWIG
GSM2344087_ENCFF981ICB_minus_strand_signal_of_all_reads_hg19.bigWig 55.0 Mb (ftp)(http) BIGWIG
GSM2344087_ENCLB414WBQ_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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