|
| Status |
Public on Aug 07, 2012 |
| Title |
CSHL_RnaSeq_IMR90_cell_longPolyA (superseded by GSE90263) |
| 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: 046WC,045WC,045WC,045WC,046WC,046WC
labexpid: LID45017,LID45016,LID45017,LID45016,LID45017,LID45016
labversion: iIDR
readtype: 2x101D
readtype description: Paired 101 nt directed reads
replicate: 1,2
spikeinpool: Nist14
localization description: Whole cell
rnaextract: longPolyA
rnaextract description: Poly(A)+ RNA longer than 200 nt
biorep: 045WC,046WC
labexpid: LID45016,LID45017
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 |
****************************
GSM981249 record metadata submitted on Aug 06 2012 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE90263
****************************
|
| 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 (3) |
| GSE26284 |
ENCODE Cold Spring Harbor Labs Long RNA-seq |
| GSE30567 |
ENCODE Cold Spring Harbor Labs Long RNA-seq (hg19) |
| GSE49417 |
The conserved organization of the human and mouse transcriptomes |
|
| Relations |
| Superseded by |
GSE90263 |
| SRA |
SRX174318 |
| BioSample |
SAMN01103819 |
| Named Annotation |
GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapMinusRep1.bigWig |
| Named Annotation |
GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapMinusRep2.bigWig |
| Named Annotation |
GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapPlusRep1.bigWig |
| Named Annotation |
GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapPlusRep2.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapContigs.bedRnaElements.gz |
10.1 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapExonsDeNovo.gff.gz |
30.1 Mb |
(ftp)(http) |
GFF |
| GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapExonsGencV10.gtf.gz |
20.0 Mb |
(ftp)(http) |
GTF |
| GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapGeneDeNovo.gff.gz |
1.1 Mb |
(ftp)(http) |
GFF |
| GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapGeneGencV10.gtf.gz |
1.8 Mb |
(ftp)(http) |
GTF |
| GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapJunctions.bedRnaElements.gz |
14.6 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapMinusRep1.bigWig |
147.3 Mb |
(ftp)(http) |
BIGWIG |
| GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapMinusRep2.bigWig |
106.5 Mb |
(ftp)(http) |
BIGWIG |
| GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapPlusRep1.bigWig |
151.1 Mb |
(ftp)(http) |
BIGWIG |
| GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapPlusRep2.bigWig |
109.5 Mb |
(ftp)(http) |
BIGWIG |
| GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapProtocolRep1V2.pdf.gz |
430.6 Kb |
(ftp)(http) |
PDF |
| GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapProtocolRep2V2.pdf.gz |
430.8 Kb |
(ftp)(http) |
PDF |
| GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapSpikeinsRep1.spikeins.bam |
325.5 Mb |
(ftp)(http) |
BAM |
| GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapSpikeinsRep2.spikeins.bam |
171.3 Mb |
(ftp)(http) |
BAM |
| GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapTranscriptDeNovo.gtf.gz |
1.5 Mb |
(ftp)(http) |
GTF |
| GSM981249_hg19_wgEncodeCshlLongRnaSeqImr90CellPapTranscriptGencV10.gtf.gz |
5.1 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
