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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;
link: Derived from ENCODE donor ENCDO845WKR;
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 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
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)
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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