NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM2344291 Query DataSets for GSM2344291
Status Public on Nov 08, 2016
Title small RNA-seq from sigmoid colon (ENCLB877OYA)
Sample type SRA
 
Source name Homo sapiens sigmoid colon tissue female adult (51 year)
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: ENCBS214FDP (SAMN05896986)
age: 51 year
dev stage: adult
donor_id: ENCDO271OUW
Sex: female
lab: Thomas Gingeras, CSHL
link: ENCBS214FDP at ENCODE; https://www.encodeproject.org/ENCBS214FDP/
link: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/
Extracted molecule total RNA
Extraction protocol extraction method: see document
general protocol: https://www.encodeproject.org/documents/0dfbb040-8d7a-44da-a8c0-9a5b471915fe/@@download/attachment/LID296506.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description https://www.encodeproject.org/experiments/ENCSR882DFF/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this Experiment come from tissue sub-sections of a 51 year old female'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: ENCSR882DFF
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2016-06-13
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB877OYA
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)
GSE88619 small RNA-seq from sigmoid colon (ENCSR882DFF)
Relations
BioSample SAMN05896986
SRA SRX2244696
Named Annotation GSM2344291_ENCFF804UAI_plus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2344291_ENCFF895PJH_minus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2344291_ENCFF073UBQ_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2344291_ENCFF634UFO_plus_strand_signal_of_all_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2344291_ENCFF073UBQ_minus_strand_signal_of_unique_reads_GRCh38.bigWig 287.4 Kb (ftp)(http) BIGWIG
GSM2344291_ENCFF096XGI_minus_strand_signal_of_unique_reads_hg19.bigWig 445.3 Kb (ftp)(http) BIGWIG
GSM2344291_ENCFF394WLH_minus_strand_signal_of_all_reads_hg19.bigWig 3.0 Mb (ftp)(http) BIGWIG
GSM2344291_ENCFF410IZL_gene_quantifications_hg19.tsv.gz 250.4 Kb (ftp)(http) TSV
GSM2344291_ENCFF415JAJ_gene_quantifications_GRCh38.tsv.gz 267.8 Kb (ftp)(http) TSV
GSM2344291_ENCFF470KLJ_plus_strand_signal_of_all_reads_hg19.bigWig 3.0 Mb (ftp)(http) BIGWIG
GSM2344291_ENCFF634UFO_plus_strand_signal_of_all_reads_GRCh38.bigWig 3.4 Mb (ftp)(http) BIGWIG
GSM2344291_ENCFF786GZI_plus_strand_signal_of_unique_reads_hg19.bigWig 468.7 Kb (ftp)(http) BIGWIG
GSM2344291_ENCFF804UAI_plus_strand_signal_of_unique_reads_GRCh38.bigWig 436.3 Kb (ftp)(http) BIGWIG
GSM2344291_ENCFF895PJH_minus_strand_signal_of_all_reads_GRCh38.bigWig 2.9 Mb (ftp)(http) BIGWIG
GSM2344291_ENCLB877OYA_README.txt.gz 1012 b (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap