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Sample GSM2343641 Query DataSets for GSM2343641
Status Public on Nov 08, 2016
Title small RNA-seq from esophagus muscularis mucosa (ENCLB368NKG)
Sample type SRA
Source name Homo sapiens esophagus muscularis mucosa tissue female adult (53 years)
Organism Homo sapiens
Characteristics tissue_type: esophagus muscularis mucosa
biomaterial_type: tissue
description: Esophagus muscle layer tissue sent from GTEx to the Gingeras lab to conduct RNA-Seq assays on.
biosample encode accession: ENCBS571LWZ (SAMN05897325)
age: 53 year
dev stage: adult
donor_id: ENCDO793LXB
Sex: female
lab: Thomas Gingeras, CSHL
link: ENCBS571LWZ 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 NextSeq 500
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this Experiment come from tissue sub-sections of a53 year old female's muscle layer of esophagus 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: ENCSR383PLJ
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2016-05-03
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB368NKG
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
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)
GSE88236 small RNA-seq from esophagus muscularis mucosa (ENCSR383PLJ)
BioSample SAMN05897325
SRA SRX2244035
Named Annotation GSM2343641_ENCFF697AEX_plus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2343641_ENCFF192QBP_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2343641_ENCFF592SNF_minus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2343641_ENCFF278JVL_plus_strand_signal_of_unique_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2343641_ENCFF071SUO_gene_quantifications_hg19.tsv.gz 257.8 Kb (ftp)(http) TSV
GSM2343641_ENCFF192QBP_minus_strand_signal_of_unique_reads_GRCh38.bigWig 565.8 Kb (ftp)(http) BIGWIG
GSM2343641_ENCFF278JVL_plus_strand_signal_of_unique_reads_GRCh38.bigWig 613.8 Kb (ftp)(http) BIGWIG
GSM2343641_ENCFF294RBB_minus_strand_signal_of_unique_reads_hg19.bigWig 604.7 Kb (ftp)(http) BIGWIG
GSM2343641_ENCFF518YMY_plus_strand_signal_of_unique_reads_hg19.bigWig 662.0 Kb (ftp)(http) BIGWIG
GSM2343641_ENCFF592SNF_minus_strand_signal_of_all_reads_GRCh38.bigWig 3.9 Mb (ftp)(http) BIGWIG
GSM2343641_ENCFF653CIR_plus_strand_signal_of_all_reads_hg19.bigWig 4.0 Mb (ftp)(http) BIGWIG
GSM2343641_ENCFF697AEX_plus_strand_signal_of_all_reads_GRCh38.bigWig 4.4 Mb (ftp)(http) BIGWIG
GSM2343641_ENCFF825ROW_gene_quantifications_GRCh38.tsv.gz 275.0 Kb (ftp)(http) TSV
GSM2343641_ENCFF910UEZ_minus_strand_signal_of_all_reads_hg19.bigWig 4.0 Mb (ftp)(http) BIGWIG
GSM2343641_ENCLB368NKG_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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