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Sample GSM2343776

Query DataSets for GSM2343776

Status

Public on Nov 08, 2016

Title

total RNA-seq from right lobe of liver (ENCLB381PQE)

Sample type

SRA

Source name

Homo sapiens right lobe of liver tissue female adult (53 years)

Organism

Homo sapiens

Characteristics

tissue_type: right lobe of liver
biomaterial_type: tissue
description: Liver tissue from a 53 year old female received by the Gingeras lab to do RNA-Seq assay on from GTEx.
biosample encode accession: ENCBS796JPW (SAMN05897573)
age: 53 year
dev stage: adult
donor_id: ENCDO793LXB
Sex: female
lab: Thomas Gingeras, CSHL
link: ENCBS796JPW at ENCODE; https://www.encodeproject.org/ENCBS796JPW/
link: Derived from ENCODE donor ENCDO793LXB; https://www.encodeproject.org/ENCDO793LXB/

Extracted molecule

total RNA

Extraction protocol

extraction method: see document
general protocol: https://www.encodeproject.org/documents/5abfbc82-cc27-4781-83f4-4c975bd3b178/@@download/attachment/296325.pdf

Library strategy

RNA-Seq

Library source

transcriptomic

Library selection

cDNA

Instrument model

Illumina HiSeq 2500

Description

https://www.encodeproject.org/experiments/ENCSR504QMK/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this Experiment come from tissue sub-sections of a 53 year old female's liver 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: ENCSR504QMK
assay title: total RNA-seq
assembly: GRCh38, hg19
encode release date: 2016-02-18
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB381PQE
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

ZIP/Postal code

94305-5120

Country

USA

Platform ID

GPL16791

Series (1)

GSE88318

total RNA-seq from right lobe of liver (ENCSR504QMK)

Relations

BioSample

SAMN05897573

SRA

SRX2244163

Named Annotation

GSM2343776_ENCFF704ZJM_minus_strand_signal_of_all_reads_GRCh38.bigWig

Named Annotation

GSM2343776_ENCFF938GIK_minus_strand_signal_of_unique_reads_GRCh38.bigWig

Named Annotation

GSM2343776_ENCFF986KUQ_plus_strand_signal_of_all_reads_GRCh38.bigWig

Named Annotation

GSM2343776_ENCFF330MOG_plus_strand_signal_of_unique_reads_GRCh38.bigWig

Supplementary file	Size	Download	File type/resource
GSM2343776_ENCFF032QLX_transcript_quantifications_GRCh38.tsv.gz	7.6 Mb	(ftp)(http)	TSV
GSM2343776_ENCFF170HLB_plus_strand_signal_of_all_reads_hg19.bigWig	96.3 Mb	(ftp)(http)	BIGWIG
GSM2343776_ENCFF280YNO_gene_quantifications_hg19.tsv.gz	2.5 Mb	(ftp)(http)	TSV
GSM2343776_ENCFF330MOG_plus_strand_signal_of_unique_reads_GRCh38.bigWig	91.1 Mb	(ftp)(http)	BIGWIG
GSM2343776_ENCFF704ZJM_minus_strand_signal_of_all_reads_GRCh38.bigWig	97.3 Mb	(ftp)(http)	BIGWIG
GSM2343776_ENCFF760MZR_minus_strand_signal_of_all_reads_hg19.bigWig	96.1 Mb	(ftp)(http)	BIGWIG
GSM2343776_ENCFF787ADQ_minus_strand_signal_of_unique_reads_hg19.bigWig	88.6 Mb	(ftp)(http)	BIGWIG
GSM2343776_ENCFF791LAQ_plus_strand_signal_of_unique_reads_hg19.bigWig	91.2 Mb	(ftp)(http)	BIGWIG
GSM2343776_ENCFF938GIK_minus_strand_signal_of_unique_reads_GRCh38.bigWig	88.8 Mb	(ftp)(http)	BIGWIG
GSM2343776_ENCFF964JAM_transcript_quantifications_hg19.tsv.gz	7.5 Mb	(ftp)(http)	TSV
GSM2343776_ENCFF979EDZ_gene_quantifications_GRCh38.tsv.gz	2.6 Mb	(ftp)(http)	TSV
GSM2343776_ENCFF986KUQ_plus_strand_signal_of_all_reads_GRCh38.bigWig	97.4 Mb	(ftp)(http)	BIGWIG
GSM2343776_ENCLB381PQE_README.txt.gz	1.2 Kb	(ftp)(http)	TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file