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Sample GSM2343960 Query DataSets for GSM2343960
Status Public on Nov 08, 2016
Title small RNA-seq from right lobe of liver (ENCLB238JDJ)
Sample type SRA
 
Source name Homo sapiens right lobe of liver tissue female adult (53 years)
Organism Homo sapiens
Characteristics tissue_type: right lobe of liver
biomaterial_type: tissue
description: Liver tissue from a 53 year old female received by the Gingeras lab to do RNA-Seq assay on from GTEx.
biosample encode accession: ENCBS773RMK (SAMN05897547)
age: 53 year
dev stage: adult
donor_id: ENCDO793LXB
Sex: female
lab: Thomas Gingeras, CSHL
link: ENCBS773RMK at ENCODE; https://www.encodeproject.org/ENCBS773RMK/
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/5e0eb362-deb7-46c1-900d-79db2c8f460a/@@download/attachment/LID296634.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description https://www.encodeproject.org/experiments/ENCSR634VLA/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this Experiment come from tissue sub-sections of a 53 year old female's right lobe of liver 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: ENCSR634VLA
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2016-08-05
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB238JDJ
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)
GSE88424 small RNA-seq from right lobe of liver (ENCSR634VLA)
Relations
BioSample SAMN05897547
SRA SRX2244356
Named Annotation GSM2343960_ENCFF537IPB_plus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2343960_ENCFF507RYR_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2343960_ENCFF588HIB_plus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2343960_ENCFF783GWT_minus_strand_signal_of_all_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2343960_ENCFF211IKV_gene_quantifications_hg19.tsv.gz 278.2 Kb (ftp)(http) TSV
GSM2343960_ENCFF239CDN_minus_strand_signal_of_unique_reads_hg19.bigWig 1.6 Mb (ftp)(http) BIGWIG
GSM2343960_ENCFF326PAJ_gene_quantifications_GRCh38.tsv.gz 295.3 Kb (ftp)(http) TSV
GSM2343960_ENCFF457YGW_plus_strand_signal_of_unique_reads_hg19.bigWig 1.6 Mb (ftp)(http) BIGWIG
GSM2343960_ENCFF464RHO_plus_strand_signal_of_all_reads_hg19.bigWig 9.7 Mb (ftp)(http) BIGWIG
GSM2343960_ENCFF466PDZ_minus_strand_signal_of_all_reads_hg19.bigWig 9.8 Mb (ftp)(http) BIGWIG
GSM2343960_ENCFF507RYR_minus_strand_signal_of_unique_reads_GRCh38.bigWig 1.5 Mb (ftp)(http) BIGWIG
GSM2343960_ENCFF537IPB_plus_strand_signal_of_unique_reads_GRCh38.bigWig 1.5 Mb (ftp)(http) BIGWIG
GSM2343960_ENCFF588HIB_plus_strand_signal_of_all_reads_GRCh38.bigWig 9.9 Mb (ftp)(http) BIGWIG
GSM2343960_ENCFF783GWT_minus_strand_signal_of_all_reads_GRCh38.bigWig 9.3 Mb (ftp)(http) BIGWIG
GSM2343960_ENCLB238JDJ_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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