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Sample GSM2344396 Query DataSets for GSM2344396
Status Public on Nov 08, 2016
Title total RNA-seq from gastrocnemius medialis (ENCLB257CMY)
Sample type SRA
 
Source name Homo sapiens gastrocnemius medialis tissue male adult (54 years)
Organism Homo sapiens
Characteristics tissue_type: gastrocnemius medialis
biomaterial_type: tissue
description: skeletal muscle tissue obtained from GTEx for the Gingeras lab to conduct RNA-Seq assays on.
biosample encode accession: ENCBS472LWI (SAMN05897229)
age: 54 year
dev stage: adult
donor_id: ENCDO451RUA
Sex: male
lab: Thomas Gingeras, CSHL
link: ENCBS472LWI at ENCODE; https://www.encodeproject.org/ENCBS472LWI/
link: Derived from ENCODE donor ENCDO451RUA; https://www.encodeproject.org/ENCDO451RUA/
Extracted molecule total RNA
Extraction protocol extraction method: see document
general protocol: https://www.encodeproject.org/documents/ce69a696-cbdf-4585-865d-0292ee8a7c67/@@download/attachment/296167.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description https://www.encodeproject.org/experiments/ENCSR967JPI/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this Experiment come from tissue sub-sections of a 54 year old male's skeletal muscle 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: ENCSR967JPI
assay title: total RNA-seq
assembly: GRCh38, hg19
encode release date: 2016-02-18
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB257CMY
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
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 GPL16791
Series (1)
GSE88677 total RNA-seq from gastrocnemius medialis (ENCSR967JPI)
Relations
BioSample SAMN05897229
SRA SRX2244802
Named Annotation GSM2344396_ENCFF186EYN_plus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2344396_ENCFF631MOJ_minus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2344396_ENCFF698JUC_plus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2344396_ENCFF020TFI_minus_strand_signal_of_unique_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2344396_ENCFF020TFI_minus_strand_signal_of_unique_reads_GRCh38.bigWig 35.8 Mb (ftp)(http) BIGWIG
GSM2344396_ENCFF064RHG_minus_strand_signal_of_unique_reads_hg19.bigWig 35.8 Mb (ftp)(http) BIGWIG
GSM2344396_ENCFF100XSE_minus_strand_signal_of_all_reads_hg19.bigWig 38.0 Mb (ftp)(http) BIGWIG
GSM2344396_ENCFF149OTO_gene_quantifications_hg19.tsv.gz 2.5 Mb (ftp)(http) TSV
GSM2344396_ENCFF186EYN_plus_strand_signal_of_all_reads_GRCh38.bigWig 38.0 Mb (ftp)(http) BIGWIG
GSM2344396_ENCFF342QEZ_plus_strand_signal_of_all_reads_hg19.bigWig 37.3 Mb (ftp)(http) BIGWIG
GSM2344396_ENCFF344TMK_plus_strand_signal_of_unique_reads_hg19.bigWig 35.3 Mb (ftp)(http) BIGWIG
GSM2344396_ENCFF353LRZ_transcript_quantifications_hg19.tsv.gz 7.3 Mb (ftp)(http) TSV
GSM2344396_ENCFF594QFC_transcript_quantifications_GRCh38.tsv.gz 7.5 Mb (ftp)(http) TSV
GSM2344396_ENCFF631MOJ_minus_strand_signal_of_all_reads_GRCh38.bigWig 38.4 Mb (ftp)(http) BIGWIG
GSM2344396_ENCFF658ESI_gene_quantifications_GRCh38.tsv.gz 2.6 Mb (ftp)(http) TSV
GSM2344396_ENCFF698JUC_plus_strand_signal_of_unique_reads_GRCh38.bigWig 35.3 Mb (ftp)(http) BIGWIG
GSM2344396_ENCLB257CMY_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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