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Sample GSM2344169 Query DataSets for GSM2344169
Status Public on Nov 08, 2016
Title total RNA-seq from transverse colon (ENCLB214XDA)
Sample type SRA
 
Source name Homo sapiens transverse colon tissue female adult (53 years)
Organism Homo sapiens
Characteristics tissue_type: transverse colon
biomaterial_type: tissue
description: Transverse colon tissue aliquot received by the Gingeras lab to conduct RNA-Seq assays on.
biosample encode accession: ENCBS974EYF (SAMN05897761)
dev stage: adult
Sex: female
donor_id: ENCDO793LXB
age: 53 year
lab: Thomas Gingeras, CSHL
link: ENCBS974EYF at ENCODE; https://www.encodeproject.org/ENCBS974EYF/
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/9d57f879-3f9f-437c-9ebd-8d9115d7e2dc/@@download/attachment/296165.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description https://www.encodeproject.org/experiments/ENCSR800WIY/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this Experiment come from tissue sub-sections from the transverse colon 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: ENCSR800WIY
assay title: total RNA-seq
assembly: GRCh38, hg19
encode release date: 2016-02-18
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB214XDA
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)
GSE88547 total RNA-seq from transverse colon (ENCSR800WIY)
Relations
BioSample SAMN05897761
SRA SRX2244577
Named Annotation GSM2344169_ENCFF572PVD_minus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2344169_ENCFF351UZL_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2344169_ENCFF982XQC_plus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2344169_ENCFF656MVW_plus_strand_signal_of_unique_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2344169_ENCFF165WEQ_minus_strand_signal_of_unique_reads_hg19.bigWig 187.0 Mb (ftp)(http) BIGWIG
GSM2344169_ENCFF251BAY_transcript_quantifications_GRCh38.tsv.gz 7.8 Mb (ftp)(http) TSV
GSM2344169_ENCFF332OML_gene_quantifications_hg19.tsv.gz 2.5 Mb (ftp)(http) TSV
GSM2344169_ENCFF351UZL_minus_strand_signal_of_unique_reads_GRCh38.bigWig 186.3 Mb (ftp)(http) BIGWIG
GSM2344169_ENCFF418PXG_transcript_quantifications_hg19.tsv.gz 7.7 Mb (ftp)(http) TSV
GSM2344169_ENCFF460HGY_plus_strand_signal_of_unique_reads_hg19.bigWig 194.3 Mb (ftp)(http) BIGWIG
GSM2344169_ENCFF572PVD_minus_strand_signal_of_all_reads_GRCh38.bigWig 200.2 Mb (ftp)(http) BIGWIG
GSM2344169_ENCFF630RAI_gene_quantifications_GRCh38.tsv.gz 2.6 Mb (ftp)(http) TSV
GSM2344169_ENCFF656MVW_plus_strand_signal_of_unique_reads_GRCh38.bigWig 193.3 Mb (ftp)(http) BIGWIG
GSM2344169_ENCFF678HXS_minus_strand_signal_of_all_reads_hg19.bigWig 198.0 Mb (ftp)(http) BIGWIG
GSM2344169_ENCFF937YXR_plus_strand_signal_of_all_reads_hg19.bigWig 204.3 Mb (ftp)(http) BIGWIG
GSM2344169_ENCFF982XQC_plus_strand_signal_of_all_reads_GRCh38.bigWig 206.6 Mb (ftp)(http) BIGWIG
GSM2344169_ENCLB214XDA_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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