|
Status |
Public on Aug 07, 2012 |
Title |
CSHL_RnaSeq_IMR90_nucleus_longPolyA (superseded by GSE90262) |
Sample type |
SRA |
|
|
Source name |
IMR90
|
Organism |
Homo sapiens |
Characteristics |
datatype: RnaSeq datatype description: Sequencing analysis of RNA expression rnaextract: longPolyA rnaextract description: Poly(A)+ RNA longer than 200 nt biorep: 046N,045N,045N,046N,045N,046N labexpid: LID45613,LID45635,LID45613,LID45635,LID45613,LID45635 labversion: iIDR readtype: 2x101D readtype description: Paired 101 nt directed reads replicate: 1,2 spikeinpool: Nist14 localization description: Large membrane bound part of cell containing chromosomes and the bulk of the cell's DNA rnaextract: longPolyA rnaextract description: Poly(A)+ RNA longer than 200 nt biorep: 046N,045N labexpid: LID45635,LID45613 labversion: iIDR readtype: 2x101D readtype description: Paired 101 nt directed reads spikeinpool: Nist14
|
Biomaterial provider |
ATCC
|
Extracted molecule |
polyA RNA |
Extraction protocol |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlLongRnaSeq
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2000 |
|
|
Description |
**************************** GSM981248 record metadata submitted on Aug 06 2012 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE90262 ****************************
|
Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlLongRnaSeq
|
|
|
Submission date |
Aug 06, 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 |
GPL11154 |
Series (2) |
GSE26284 |
ENCODE Cold Spring Harbor Labs Long RNA-seq |
GSE30567 |
ENCODE Cold Spring Harbor Labs Long RNA-seq (hg19) |
|
Relations |
Superseded by |
GSE90262 |
SRA |
SRX174317 |
BioSample |
SAMN01103818 |
Named Annotation |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapMinusRep1.bigWig |
Named Annotation |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapMinusRep2.bigWig |
Named Annotation |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapPlusRep1.bigWig |
Named Annotation |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapPlusRep2.bigWig |
Supplementary file |
Size |
Download |
File type/resource |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapContigs.bedRnaElements.gz |
24.0 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapExonsDeNovo.gff.gz |
20.9 Mb |
(ftp)(http) |
GFF |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapExonsGencV10.gtf.gz |
20.0 Mb |
(ftp)(http) |
GTF |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapGeneDeNovo.gff.gz |
3.4 Mb |
(ftp)(http) |
GFF |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapGeneGencV10.gtf.gz |
1.8 Mb |
(ftp)(http) |
GTF |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapJunctions.bedRnaElements.gz |
20.7 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapMinusRep1.bigWig |
200.4 Mb |
(ftp)(http) |
BIGWIG |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapMinusRep2.bigWig |
313.7 Mb |
(ftp)(http) |
BIGWIG |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapPlusRep1.bigWig |
208.0 Mb |
(ftp)(http) |
BIGWIG |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapPlusRep2.bigWig |
323.1 Mb |
(ftp)(http) |
BIGWIG |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapProtocolRep1V2.pdf.gz |
355.7 Kb |
(ftp)(http) |
PDF |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapProtocolRep2V2.pdf.gz |
348.3 Kb |
(ftp)(http) |
PDF |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapSpikeinsRep1.spikeins.bam |
248.2 Mb |
(ftp)(http) |
BAM |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapSpikeinsRep2.spikeins.bam |
353.4 Mb |
(ftp)(http) |
BAM |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapTranscriptDeNovo.gtf.gz |
4.0 Mb |
(ftp)(http) |
GTF |
GSM981248_hg19_wgEncodeCshlLongRnaSeqImr90NucleusPapTranscriptGencV10.gtf.gz |
5.1 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |