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Sample GSM1000564

Query DataSets for GSM1000564

Status

Public on Sep 10, 2012

Title

CSHL_RnaSeq_Bladder_adult-8wks (superseded by GSE90204)

Sample type

SRA

Source name

Bladder

Organism

Mus musculus

Characteristics

lab: CSHL-m
lab description: Gingeras - Cold Spring Harbor Laboratory
datatype: RnaSeq
datatype description: Sequencing analysis of RNA expression
cell: Bladder
cell organism: mouse
cell description: Urinary Bladder
cell sex: U
age: adult-8wks
age description: Adult 8 weeks
age: adult-8wks
age description: Adult 8 weeks
biorep: 30AWC,30BWC
labexpid: LID47030,LID47031
readtype: 2x101D
readtype description: Paired 101 nt directed reads
spikeinpool: Nist14
strain: C57BL/6J
strain description: A substrain of C57BL/6

Biomaterial provider

CSHL lab

Growth protocol

Bladder_Gingeras_protocol.pdf

Extracted molecule

polyA RNA

Extraction protocol

http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=mm9&g=wgEncodeCshlLongRnaSeq

Library strategy

RNA-Seq

Library source

transcriptomic

Library selection

cDNA

Instrument model

Illumina HiSeq 2000

Description

****************************
GSM1000564 record metadata submitted on Sep 10 2012 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE90204
****************************

Data processing

http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=mm9&g=wgEncodeCshlLongRnaSeq

Submission date

Sep 10, 2012

Last update date

Feb 26, 2020

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

GPL13112

Series (3)

GSE36025	Long RNA-seq from ENCODE/Cold Spring Harbor Lab
GSE49417	The conserved organization of the human and mouse transcriptomes
GSE49847	A comparative encyclopedia of DNA elements in the mouse genome

Relations

Reanalyzed by

Superseded by

Reanalyzed by

SRA

BioSample

Named Annotation

GSM1000564_mm9_wgEncodeCshlLongRnaSeqBladderAdult8wksMinusRawRep1.bigWig

Named Annotation

GSM1000564_mm9_wgEncodeCshlLongRnaSeqBladderAdult8wksMinusRawRep2.bigWig

Named Annotation

GSM1000564_mm9_wgEncodeCshlLongRnaSeqBladderAdult8wksPlusRawRep1.bigWig

Named Annotation

GSM1000564_mm9_wgEncodeCshlLongRnaSeqBladderAdult8wksPlusRawRep2.bigWig

Supplementary file	Size	Download	File type/resource
GSM1000564_mm9_wgEncodeCshlLongRnaSeqBladderAdult8wksContigs.bedRnaElements.gz	11.1 Mb	(ftp)(http)	BEDRNAELEMENTS
GSM1000564_mm9_wgEncodeCshlLongRnaSeqBladderAdult8wksJunctions.bedRnaElements.gz	13.8 Mb	(ftp)(http)	BEDRNAELEMENTS
GSM1000564_mm9_wgEncodeCshlLongRnaSeqBladderAdult8wksMinusRawRep1.bigWig	240.7 Mb	(ftp)(http)	BIGWIG
GSM1000564_mm9_wgEncodeCshlLongRnaSeqBladderAdult8wksMinusRawRep2.bigWig	218.3 Mb	(ftp)(http)	BIGWIG
GSM1000564_mm9_wgEncodeCshlLongRnaSeqBladderAdult8wksPlusRawRep1.bigWig	246.7 Mb	(ftp)(http)	BIGWIG
GSM1000564_mm9_wgEncodeCshlLongRnaSeqBladderAdult8wksPlusRawRep2.bigWig	222.9 Mb	(ftp)(http)	BIGWIG
GSM1000564_mm9_wgEncodeCshlLongRnaSeqBladderAdult8wksSpikeinsRep1.bam	1.1 Gb	(ftp)(http)	BAM
GSM1000564_mm9_wgEncodeCshlLongRnaSeqBladderAdult8wksSpikeinsRep2.bam	1.2 Gb	(ftp)(http)	BAM
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file