|
Status |
Public on Jul 13, 2011 |
Title |
CSHL_RnaSeq_GM12878_cytosol_longPolyA (superseded by GSE90222) |
Sample type |
SRA |
|
|
Source name |
GM12878
|
Organism |
Homo sapiens |
Characteristics |
datatype: RnaSeq datatype description: Sequencing analysis of RNA expression cell description: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus rnaextract: longPolyA rnaextract description: Poly(A)+ RNA longer than 200 nt biorep: 004C,003C,004C,003C labexpid: LID8467,LID8468,LID8467,LID8468 labversion: iIDR readtype: 2x76D readtype description: Paired 76 nt directed reads replicate: 1,2 spikeinpool: Nist14 rnaextract: longPolyA rnaextract description: Poly(A)+ RNA longer than 200 nt biorep: 003C,004C labexpid: LID8467,LID8468 labversion: iIDR spikeinpool: NIST14
|
Biomaterial provider |
Coriell
|
Growth protocol |
GM12878_protocol.pdf
|
Extracted molecule |
polyA RNA |
Extraction protocol |
Instrument model unknown. ("Illumina Genome Analyzer" specified by default). For more information, see http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlLongRnaSeq
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina Genome Analyzer IIx |
|
|
Description |
**************************** GSM758560 record metadata submitted on Jul 11 2011 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE90222 ****************************
|
Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlLongRnaSeq
|
|
|
Submission date |
Jul 11, 2011 |
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 |
GPL10999 |
Series (2) |
GSE26284 |
ENCODE Cold Spring Harbor Labs Long RNA-seq |
GSE30567 |
ENCODE Cold Spring Harbor Labs Long RNA-seq (hg19) |
|
Relations |
Superseded by |
GSE90222 |
SRA |
SRX082566 |
BioSample |
SAMN00634071 |
Named Annotation |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapMinusRawSigRep1.bigWig |
Named Annotation |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapMinusRawSigRep2.bigWig |
Named Annotation |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapPlusRawSigRep1.bigWig |
Named Annotation |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapPlusRawSigRep2.bigWig |
Supplementary file |
Size |
Download |
File type/resource |
GSM758560_hg19_wgEncodeCshlLongRnaSeqGm12878CytosolPapExonsDeNovo.gff.gz |
6.1 Mb |
(ftp)(http) |
GFF |
GSM758560_hg19_wgEncodeCshlLongRnaSeqGm12878CytosolPapExonsGencV7.gtf.gz |
18.5 Mb |
(ftp)(http) |
GTF |
GSM758560_hg19_wgEncodeCshlLongRnaSeqGm12878CytosolPapGeneDeNovoV2.gff.gz |
1.1 Mb |
(ftp)(http) |
GFF |
GSM758560_hg19_wgEncodeCshlLongRnaSeqGm12878CytosolPapGeneGencV7.gtf.gz |
2.0 Mb |
(ftp)(http) |
GTF |
GSM758560_hg19_wgEncodeCshlLongRnaSeqGm12878CytosolPapTranscriptDeNovoV2.gtf.gz |
1.5 Mb |
(ftp)(http) |
GTF |
GSM758560_hg19_wgEncodeCshlLongRnaSeqGm12878CytosolPapTranscriptGencV7.gtf.gz |
4.9 Mb |
(ftp)(http) |
GTF |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapContigs.bedRnaElements.gz |
11.2 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapExonGencV3c.gtf.gz |
15.0 Mb |
(ftp)(http) |
GTF |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapGeneDeNovo.gtf.gz |
1.2 Mb |
(ftp)(http) |
GTF |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapGeneGencV3c.gtf.gz |
1.7 Mb |
(ftp)(http) |
GTF |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapJunctions.bedRnaElements.gz |
9.2 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapMinusRawSigRep1.bigWig |
444.2 Mb |
(ftp)(http) |
BIGWIG |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapMinusRawSigRep2.bigWig |
425.0 Mb |
(ftp)(http) |
BIGWIG |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapPlusRawSigRep1.bigWig |
456.9 Mb |
(ftp)(http) |
BIGWIG |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapPlusRawSigRep2.bigWig |
437.0 Mb |
(ftp)(http) |
BIGWIG |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapProtocolRep1.pdf.gz |
953.0 Kb |
(ftp)(http) |
PDF |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapProtocolRep2.pdf.gz |
959.3 Kb |
(ftp)(http) |
PDF |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapSpikeinsRep1.spikeins.bam |
78.0 Mb |
(ftp)(http) |
BAM |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapSpikeinsRep2.spikeins.bam |
42.4 Mb |
(ftp)(http) |
BAM |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapTranscriptDeNovo.gtf.gz |
13.7 Mb |
(ftp)(http) |
GTF |
GSM758560_wgEncodeCshlLongRnaSeqGm12878CytosolPapTranscriptGencV3c.gtf.gz |
11.4 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |