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Sample GSM2344141 Query DataSets for GSM2344141
Status Public on Nov 08, 2016
Title small RNA-seq from esophagus squamous epithelium (ENCLB234JEI)
Sample type SRA
 
Source name Homo sapiens esophagus squamous epithelium tissue female adult (51 year)
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: ENCBS842VSS (SAMN05897621)
age: 51 year
dev stage: adult
donor_id: ENCDO271OUW
Sex: female
lab: Thomas Gingeras, CSHL
link: ENCBS842VSS at ENCODE; https://www.encodeproject.org/ENCBS842VSS/
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/6c3d35b8-e749-4150-830f-4ceb2d444005/@@download/attachment/LID296585.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description https://www.encodeproject.org/experiments/ENCSR779BVZ/
***************
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 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: ENCSR779BVZ
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2016-06-13
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB234JEI
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)
GSE88531 small RNA-seq from esophagus squamous epithelium (ENCSR779BVZ)
Relations
BioSample SAMN05897621
SRA SRX2244559
Named Annotation GSM2344141_ENCFF546KLZ_minus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2344141_ENCFF135KEC_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2344141_ENCFF916TGI_plus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2344141_ENCFF755IOO_plus_strand_signal_of_unique_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2344141_ENCFF126KXZ_plus_strand_signal_of_all_reads_hg19.bigWig 10.2 Mb (ftp)(http) BIGWIG
GSM2344141_ENCFF135KEC_minus_strand_signal_of_unique_reads_GRCh38.bigWig 1.5 Mb (ftp)(http) BIGWIG
GSM2344141_ENCFF306YTS_minus_strand_signal_of_all_reads_hg19.bigWig 10.3 Mb (ftp)(http) BIGWIG
GSM2344141_ENCFF482PGZ_gene_quantifications_GRCh38.tsv.gz 289.8 Kb (ftp)(http) TSV
GSM2344141_ENCFF546KLZ_minus_strand_signal_of_all_reads_GRCh38.bigWig 9.9 Mb (ftp)(http) BIGWIG
GSM2344141_ENCFF649ABP_plus_strand_signal_of_unique_reads_hg19.bigWig 1.6 Mb (ftp)(http) BIGWIG
GSM2344141_ENCFF755IOO_plus_strand_signal_of_unique_reads_GRCh38.bigWig 1.5 Mb (ftp)(http) BIGWIG
GSM2344141_ENCFF916TGI_plus_strand_signal_of_all_reads_GRCh38.bigWig 10.6 Mb (ftp)(http) BIGWIG
GSM2344141_ENCFF966LTL_minus_strand_signal_of_unique_reads_hg19.bigWig 1.5 Mb (ftp)(http) BIGWIG
GSM2344141_ENCFF985VTV_gene_quantifications_hg19.tsv.gz 272.6 Kb (ftp)(http) TSV
GSM2344141_ENCLB234JEI_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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