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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; https://www.encodeproject.org/ENCBS571LWZ/
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/bb82ca5f-e871-43e6-9336-d81f9979adf9/@@download/attachment/LID296592.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description https://www.encodeproject.org/experiments/ENCSR383PLJ/
***************
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
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)
GSE88236 small RNA-seq from esophagus muscularis mucosa (ENCSR383PLJ)
Relations
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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