NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1000571 Query DataSets for GSM1000571
Status Public on Sep 10, 2012
Title CSHL_RnaSeq_Liver_E14.5 (superseded by GSE90196)
Sample type SRA
 
Source name Liver
Organism Mus musculus
Characteristics lab: CSHL-m
lab description: Gingeras - Cold Spring Harbor Laboratory
datatype: RnaSeq
datatype description: Sequencing analysis of RNA expression
cell: Liver
cell organism: mouse
cell description: Liver
cell sex: U
age: E14.5
age description: Embryonic day 14.5
age: E14.5
age description: Embryonic day 14.5
biorep: 28AWC,28BWC
labexpid: LID47146,LID47147
readtype: 2x101D
readtype description: Paired 101 nt directed reads
spikeinpool: Nist14
strain: C57BL/6J
strain description: A substrain of C57BL/6
Biomaterial provider 1)Stam lab; 2)CSHL lab
Growth protocol Tissue_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 ****************************
GSM1000571 record metadata submitted on Sep 10 2012 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE90196
****************************
Data processing http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=mm9&g=wgEncodeCshlLongRnaSeq
 
Submission date Sep 10, 2012
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 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 GSE80797
Superseded by GSE90196
SRA SRX186050
BioSample SAMN01164140
Named Annotation GSM1000571_mm9_wgEncodeCshlLongRnaSeqLiverE14halfMinusRawRep1.bigWig
Named Annotation GSM1000571_mm9_wgEncodeCshlLongRnaSeqLiverE14halfMinusRawRep2.bigWig
Named Annotation GSM1000571_mm9_wgEncodeCshlLongRnaSeqLiverE14halfPlusRawRep1.bigWig
Named Annotation GSM1000571_mm9_wgEncodeCshlLongRnaSeqLiverE14halfPlusRawRep2.bigWig

Supplementary file Size Download File type/resource
GSM1000571_mm9_wgEncodeCshlLongRnaSeqLiverE14halfContigs.bedRnaElements.gz 9.7 Mb (ftp)(http) BEDRNAELEMENTS
GSM1000571_mm9_wgEncodeCshlLongRnaSeqLiverE14halfJunctions.bedRnaElements.gz 11.7 Mb (ftp)(http) BEDRNAELEMENTS
GSM1000571_mm9_wgEncodeCshlLongRnaSeqLiverE14halfMinusRawRep1.bigWig 177.8 Mb (ftp)(http) BIGWIG
GSM1000571_mm9_wgEncodeCshlLongRnaSeqLiverE14halfMinusRawRep2.bigWig 130.4 Mb (ftp)(http) BIGWIG
GSM1000571_mm9_wgEncodeCshlLongRnaSeqLiverE14halfPlusRawRep1.bigWig 180.6 Mb (ftp)(http) BIGWIG
GSM1000571_mm9_wgEncodeCshlLongRnaSeqLiverE14halfPlusRawRep2.bigWig 132.2 Mb (ftp)(http) BIGWIG
GSM1000571_mm9_wgEncodeCshlLongRnaSeqLiverE14halfSpikeinsRep1.bam 500.1 Mb (ftp)(http) BAM
GSM1000571_mm9_wgEncodeCshlLongRnaSeqLiverE14halfSpikeinsRep2.bam 210.9 Mb (ftp)(http) BAM
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