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Sample GSM2343865

Query DataSets for GSM2343865

Status

Public on Nov 08, 2016

Title

total RNA-seq from right atrium auricular region (ENCLB471FWT)

Sample type

SRA

Source name

Homo sapiens right atrium auricular region tissue female adult (53 years)

Organism

Homo sapiens

Characteristics

tissue_type: right atrium auricular region
biomaterial_type: tissue
description: Atrial appendage tissue from received by the Gingeras lab to do RNA-Seq assay on from GTEx.
biosample encode accession: ENCBS357SRJ (SAMN05897119)
age: 53 year
dev stage: adult
donor_id: ENCDO793LXB
Sex: female
lab: Thomas Gingeras, CSHL
link: ENCBS357SRJ at ENCODE; https://www.encodeproject.org/ENCBS357SRJ/
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/ccc5fe91-fad8-4410-a556-0298fdbe774a/@@download/attachment/296327.pdf

Library strategy

RNA-Seq

Library source

transcriptomic

Library selection

cDNA

Instrument model

Illumina HiSeq 2500

Description

https://www.encodeproject.org/experiments/ENCSR571RXE/
***************
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 heart 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: ENCSR571RXE
assay title: total RNA-seq
assembly: GRCh38, hg19
encode release date: 2016-02-18
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB471FWT
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)

GSE88367

total RNA-seq from right atrium auricular region (ENCSR571RXE)

Relations

BioSample

SAMN05897119

SRA

SRX2244255

Named Annotation

GSM2343865_ENCFF206QCW_plus_strand_signal_of_unique_reads_GRCh38.bigWig

Named Annotation

GSM2343865_ENCFF034FRY_minus_strand_signal_of_unique_reads_GRCh38.bigWig

Named Annotation

GSM2343865_ENCFF640DNK_minus_strand_signal_of_all_reads_GRCh38.bigWig

Named Annotation

GSM2343865_ENCFF536URY_plus_strand_signal_of_all_reads_GRCh38.bigWig

Supplementary file	Size	Download	File type/resource
GSM2343865_ENCFF014PNN_plus_strand_signal_of_unique_reads_hg19.bigWig	87.6 Mb	(ftp)(http)	BIGWIG
GSM2343865_ENCFF034FRY_minus_strand_signal_of_unique_reads_GRCh38.bigWig	85.9 Mb	(ftp)(http)	BIGWIG
GSM2343865_ENCFF132SDD_gene_quantifications_GRCh38.tsv.gz	2.6 Mb	(ftp)(http)	TSV
GSM2343865_ENCFF206DFQ_transcript_quantifications_GRCh38.tsv.gz	7.7 Mb	(ftp)(http)	TSV
GSM2343865_ENCFF206QCW_plus_strand_signal_of_unique_reads_GRCh38.bigWig	87.9 Mb	(ftp)(http)	BIGWIG
GSM2343865_ENCFF264SIZ_minus_strand_signal_of_unique_reads_hg19.bigWig	85.5 Mb	(ftp)(http)	BIGWIG
GSM2343865_ENCFF273YMM_minus_strand_signal_of_all_reads_hg19.bigWig	91.4 Mb	(ftp)(http)	BIGWIG
GSM2343865_ENCFF511TBA_transcript_quantifications_hg19.tsv.gz	7.6 Mb	(ftp)(http)	TSV
GSM2343865_ENCFF536URY_plus_strand_signal_of_all_reads_GRCh38.bigWig	95.3 Mb	(ftp)(http)	BIGWIG
GSM2343865_ENCFF640DNK_minus_strand_signal_of_all_reads_GRCh38.bigWig	92.1 Mb	(ftp)(http)	BIGWIG
GSM2343865_ENCFF701KTC_gene_quantifications_hg19.tsv.gz	2.5 Mb	(ftp)(http)	TSV
GSM2343865_ENCFF762GVG_plus_strand_signal_of_all_reads_hg19.bigWig	94.5 Mb	(ftp)(http)	BIGWIG
GSM2343865_ENCLB471FWT_README.txt.gz	1.2 Kb	(ftp)(http)	TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file