|
| Status |
Public on Aug 07, 2012 |
| Title |
CSHL_RnaSeq_IMR90_cell_total (superseded by GSE90257) |
| Sample type |
SRA |
| |
|
| Source name |
IMR90
|
| Organism |
Homo sapiens |
| Characteristics |
datatype: RnaSeq
datatype description: Sequencing analysis of RNA expression
rnaextract: total
rnaextract description: Total RNA extract (longer than 200 nt)
biorep: 045WC,045WC,046WC,046WC
labexpid: LID45238,LID45239,LID45239,LID45238
labversion: iIDR
readtype: 2x101D
readtype description: Paired 101 nt directed reads
replicate: 1,2
spikeinpool: Nist14
localization description: Whole cell
rnaextract: total
rnaextract description: Total RNA extract (longer than 200 nt)
biorep: 045WC,046WC
labexpid: LID45238,LID45239
labversion: iIDR
readtype: 2x101D
readtype description: Paired 101 nt directed reads
spikeinpool: Nist14
|
| Biomaterial provider |
ATCC
|
| Extracted molecule |
total 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 |
****************************
GSM981243 record metadata submitted on Aug 06 2012 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE90257
****************************
|
| 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| Superseded by |
GSE90257 |
| SRA |
SRX174312 |
| BioSample |
SAMN01103813 |
| Named Annotation |
GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalMinusRep1.bigWig |
| Named Annotation |
GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalMinusRep2.bigWig |
| Named Annotation |
GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalPlusRep1.bigWig |
| Named Annotation |
GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalPlusRep2.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalContigs.bedRnaElements.gz |
31.4 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalExonsDeNovo.gff.gz |
13.0 Mb |
(ftp)(http) |
GFF |
| GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalExonsGencV10.gtf.gz |
19.6 Mb |
(ftp)(http) |
GTF |
| GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalGeneDeNovo.gff.gz |
2.6 Mb |
(ftp)(http) |
GFF |
| GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalGeneGencV10.gtf.gz |
1.8 Mb |
(ftp)(http) |
GTF |
| GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalJunctions.bedRnaElements.gz |
13.5 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalMinusRep1.bigWig |
233.4 Mb |
(ftp)(http) |
BIGWIG |
| GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalMinusRep2.bigWig |
240.4 Mb |
(ftp)(http) |
BIGWIG |
| GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalPlusRep1.bigWig |
238.2 Mb |
(ftp)(http) |
BIGWIG |
| GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalPlusRep2.bigWig |
245.5 Mb |
(ftp)(http) |
BIGWIG |
| GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalProtocolRep1V2.pdf.gz |
341.7 Kb |
(ftp)(http) |
PDF |
| GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalProtocolRep2V2.pdf.gz |
340.6 Kb |
(ftp)(http) |
PDF |
| GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalSpikeinsRep1.spikeins.bam |
136.9 Mb |
(ftp)(http) |
BAM |
| GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalSpikeinsRep2.spikeins.bam |
115.9 Mb |
(ftp)(http) |
BAM |
| GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalTranscriptDeNovo.gtf.gz |
3.1 Mb |
(ftp)(http) |
GTF |
| GSM981243_hg19_wgEncodeCshlLongRnaSeqImr90CellTotalTranscriptGencV10.gtf.gz |
4.9 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
