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Sample GSM2344290 Query DataSets for GSM2344290
Status Public on Nov 08, 2016
Title small RNA-seq from sigmoid colon (ENCLB595PHO)
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/2689493e-b8eb-4c3a-8081-f569dfe4f950/@@download/attachment/LID296503.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description https://www.encodeproject.org/experiments/ENCSR880LXP/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this Experiment come from tissue sub-sections of a 37 year old male's sigmoid colon 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: ENCSR880LXP
assay title: small RNA-seq
assembly: hg19, GRCh38
encode release date: 2016-05-23
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB595PHO
size range: <200
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 GPL18573
Series (1)
GSE88618 small RNA-seq from sigmoid colon (ENCSR880LXP)
Relations
BioSample SAMN05897273
SRA SRX2244697
Named Annotation GSM2344290_ENCFF012HMI_plus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2344290_ENCFF376ZDT_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2344290_ENCFF478SZI_plus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2344290_ENCFF367VOG_minus_strand_signal_of_all_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2344290_ENCFF012HMI_plus_strand_signal_of_unique_reads_GRCh38.bigWig 574.6 Kb (ftp)(http) BIGWIG
GSM2344290_ENCFF045KNK_gene_quantifications_GRCh38.tsv.gz 273.5 Kb (ftp)(http) TSV
GSM2344290_ENCFF367VOG_minus_strand_signal_of_all_reads_GRCh38.bigWig 3.7 Mb (ftp)(http) BIGWIG
GSM2344290_ENCFF376ZDT_minus_strand_signal_of_unique_reads_GRCh38.bigWig 537.3 Kb (ftp)(http) BIGWIG
GSM2344290_ENCFF429VLR_gene_quantifications_hg19.tsv.gz 258.9 Kb (ftp)(http) TSV
GSM2344290_ENCFF478SZI_plus_strand_signal_of_all_reads_GRCh38.bigWig 4.2 Mb (ftp)(http) BIGWIG
GSM2344290_ENCFF479CXT_minus_strand_signal_of_unique_reads_hg19.bigWig 588.1 Kb (ftp)(http) BIGWIG
GSM2344290_ENCFF611HMQ_plus_strand_signal_of_all_reads_hg19.bigWig 3.9 Mb (ftp)(http) BIGWIG
GSM2344290_ENCFF775IHU_plus_strand_signal_of_unique_reads_hg19.bigWig 631.6 Kb (ftp)(http) BIGWIG
GSM2344290_ENCFF860VFF_minus_strand_signal_of_all_reads_hg19.bigWig 3.9 Mb (ftp)(http) BIGWIG
GSM2344290_ENCLB595PHO_README.txt.gz 1022 b (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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