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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;
link: Derived from ENCODE donor ENCDO451RUA;
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 HiSeq 2500
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
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)
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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