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Sample GSM2344258 Query DataSets for GSM2344258
Status Public on Nov 08, 2016
Title total RNA-seq from sigmoid colon (ENCLB743CLP)
Sample type SRA
 
Source name Homo sapiens sigmoid colon tissue male adult (37 years)
Organism Homo sapiens
Characteristics tissue_type: sigmoid colon
biomaterial_type: tissue
description: Sigmoid colon tissue aliquot received by the Gingeras lab to conduct RNA-Seq assays on.
biosample encode accession: ENCBS516KIQ (SAMN05897273)
age: 37 year
dev stage: adult
donor_id: ENCDO845WKR
Sex: male
lab: Thomas Gingeras, CSHL
link: ENCBS516KIQ at ENCODE; https://www.encodeproject.org/ENCBS516KIQ/
link: Derived from ENCODE donor ENCDO845WKR; https://www.encodeproject.org/ENCDO845WKR/
Extracted molecule total RNA
Extraction protocol extraction method: see document
general protocol: https://www.encodeproject.org/documents/16278ca1-e2ab-4883-93bd-078771646212/@@download/attachment/296139.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description https://www.encodeproject.org/experiments/ENCSR857WJK/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this Experiment come from tissue sub-sections from the sigmoid 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: ENCSR857WJK
assay title: total RNA-seq
assembly: hg19, GRCh38
encode release date: 2016-02-18
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB743CLP
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)
GSE88599 total RNA-seq from sigmoid colon (ENCSR857WJK)
Relations
BioSample SAMN05897273
SRA SRX2244656
Named Annotation GSM2344258_ENCFF658PZH_minus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2344258_ENCFF592ZPG_plus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2344258_ENCFF413JWG_plus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2344258_ENCFF796AEK_minus_strand_signal_of_unique_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2344258_ENCFF265BCJ_plus_strand_signal_of_unique_reads_hg19.bigWig 129.3 Mb (ftp)(http) BIGWIG
GSM2344258_ENCFF395RGL_plus_strand_signal_of_all_reads_hg19.bigWig 136.1 Mb (ftp)(http) BIGWIG
GSM2344258_ENCFF413JWG_plus_strand_signal_of_all_reads_GRCh38.bigWig 137.0 Mb (ftp)(http) BIGWIG
GSM2344258_ENCFF462LGT_transcript_quantifications_hg19.tsv.gz 7.6 Mb (ftp)(http) TSV
GSM2344258_ENCFF517LAP_gene_quantifications_GRCh38.tsv.gz 2.6 Mb (ftp)(http) TSV
GSM2344258_ENCFF592ZPG_plus_strand_signal_of_unique_reads_GRCh38.bigWig 129.1 Mb (ftp)(http) BIGWIG
GSM2344258_ENCFF658PZH_minus_strand_signal_of_all_reads_GRCh38.bigWig 127.2 Mb (ftp)(http) BIGWIG
GSM2344258_ENCFF692LOO_minus_strand_signal_of_unique_reads_hg19.bigWig 119.1 Mb (ftp)(http) BIGWIG
GSM2344258_ENCFF709EQU_minus_strand_signal_of_all_reads_hg19.bigWig 126.4 Mb (ftp)(http) BIGWIG
GSM2344258_ENCFF796AEK_minus_strand_signal_of_unique_reads_GRCh38.bigWig 119.0 Mb (ftp)(http) BIGWIG
GSM2344258_ENCFF934VJV_gene_quantifications_hg19.tsv.gz 2.5 Mb (ftp)(http) TSV
GSM2344258_ENCFF992VHN_transcript_quantifications_GRCh38.tsv.gz 7.7 Mb (ftp)(http) TSV
GSM2344258_ENCLB743CLP_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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