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GEO accession:
Sample GSM2071597
Query DataSets for GSM2071597
Status
Public on Mar 18, 2016
Title
total RNA-seq from liver (ENCLB278MMD)
Sample type
SRA
Source name
Mus musculus strain B6NCrl liver tissue mixed sex embryo (14.5 days)
Organism
Mus musculus
Characteristics
tissue_type: liver
biomaterial_type: tissue
description: single liver from pup 1 pregnant 2 collected 7/15/2014
biosample encode accession: ENCBS237YNZ (SAMN04284039)
age: 14.5 day
donor_id: ENCDO956IXV
dev stage: embryonic
Sex: pooled male and female
lab: Barbara Wold, Caltech
link: ENCBS237YNZ at ENCODE;
https://www.encodeproject.org/ENCBS237YNZ/
link: Derived from ENCODE donor ENCDO956IXV;
https://www.encodeproject.org/ENCDO956IXV/
link: excision protocol;
https://www.encodeproject.org/documents/631aa21c-8e48-467e-8cac-d40c875b3913/@@download/attachment/StandardTissueExcisionProtocol_02132017.pdf
Extracted molecule
total RNA
Extraction protocol
extraction method: Ambion mirVana
extraction protocol:
https://www.encodeproject.org/documents/428a184d-7fa1-4599-9d8d-749c2eba7edd/@@download/attachment/cms_055740.pdf,
extraction protocol:
https://www.encodeproject.org/documents/f0cc5a7f-96a5-4970-9f46-317cc8e2d6a4/@@download/attachment/cms_055423.pdf,
general protocol:
https://www.encodeproject.org/documents/5f5193b0-0c61-40c6-a286-b1f6d6f0c0da/@@download/attachment/SmartSeqProtocol.pdf
Library strategy
RNA-Seq
Library source
transcriptomic
Library selection
cDNA
Instrument model
Illumina HiSeq 2500
Description
https://www.encodeproject.org/experiments/ENCSR867YNV/
***************
biological replicate number: 2
technical replicate number: 1
description: RNA-seq on embryonic 14.5 day mouse liver
experiment encode accession: ENCSR867YNV
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-12-17
lab: Barbara Wold, Caltech
library encode accession: ENCLB278MMD
size range: >200
spikeins used: /references/ENCSR884LPM/
nucleic acid starting quantity: 10.0
nucleic acid starting quantity units: ng
Data processing
See GSM*_README.txt supplementary file linked below
Submission date
Feb 24, 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
GPL17021
Series (1)
GSE78472
total RNA-seq from liver (ENCSR867YNV)
Relations
SRA
SRX1603275
BioSample
SAMN04284039
Named Annotation
GSM2071597_ENCFF742ERR_signal_of_all_reads_mm10.bigWig
Named Annotation
GSM2071597_ENCFF132ZES_signal_of_unique_reads_mm10.bigWig
Supplementary file
Size
Download
File type/resource
GSM2071597_ENCFF132ZES_signal_of_unique_reads_mm10.bigWig
78.7 Mb
(ftp)
(http)
BIGWIG
GSM2071597_ENCFF440NBR_transcript_quantifications_mm10.tsv.gz
4.4 Mb
(ftp)
(http)
TSV
GSM2071597_ENCFF572OPZ_gene_quantifications_mm10.tsv.gz
2.0 Mb
(ftp)
(http)
TSV
GSM2071597_ENCFF742ERR_signal_of_all_reads_mm10.bigWig
94.3 Mb
(ftp)
(http)
BIGWIG
GSM2071597_ENCLB278MMD_README.txt.gz
645 b
(ftp)
(http)
TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file
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