|
| Status |
Public on Aug 07, 2012 |
| Title |
CSHL_RnaSeq_SK-N-SH_cell_longPolyA (superseded by GSE90266) |
| Sample type |
SRA |
| |
|
| Source name |
SK-N-SH
|
| 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: 086WC,085WC,086WC,085WC,086WC,085WC
labexpid: LID46599,LID46598,LID46598,LID46599,LID46599,LID46598
labversion: iIDR
readtype: 2x101D
readtype description: Paired 101 nt directed reads
replicate: 3,4
spikeinpool: Nist14
localization description: Whole cell
rnaextract: longPolyA
rnaextract description: Poly(A)+ RNA longer than 200 nt
biorep: 085WC,086WC
labexpid: LID46598,LID46599
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 |
****************************
GSM981253 record metadata submitted on Aug 06 2012 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE90266
****************************
|
| 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| Superseded by |
GSE90266 |
| SRA |
SRX174322 |
| BioSample |
SAMN01103823 |
| Named Annotation |
GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapMinusRep3.bigWig |
| Named Annotation |
GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapMinusRep4.bigWig |
| Named Annotation |
GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapPlusRep3.bigWig |
| Named Annotation |
GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapPlusRep4.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapContigs.bedRnaElements.gz |
18.8 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapExonsDeNovo.gff.gz |
15.9 Mb |
(ftp)(http) |
GFF |
| GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapExonsGencV10.gtf.gz |
20.1 Mb |
(ftp)(http) |
GTF |
| GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapGeneDeNovo.gff.gz |
1.5 Mb |
(ftp)(http) |
GFF |
| GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapGeneGencV10.gtf.gz |
1.8 Mb |
(ftp)(http) |
GTF |
| GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapJunctions.bedRnaElements.gz |
13.0 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapMinusRep3.bigWig |
150.1 Mb |
(ftp)(http) |
BIGWIG |
| GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapMinusRep4.bigWig |
149.2 Mb |
(ftp)(http) |
BIGWIG |
| GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapPlusRep3.bigWig |
154.0 Mb |
(ftp)(http) |
BIGWIG |
| GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapPlusRep4.bigWig |
152.9 Mb |
(ftp)(http) |
BIGWIG |
| GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapProtocolRep3.pdf.gz |
451.9 Kb |
(ftp)(http) |
PDF |
| GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapProtocolRep4.pdf.gz |
458.8 Kb |
(ftp)(http) |
PDF |
| GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapSpikeinsRep3.spikeins.bam |
550.4 Mb |
(ftp)(http) |
BAM |
| GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapSpikeinsRep4.spikeins.bam |
305.0 Mb |
(ftp)(http) |
BAM |
| GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapTranscriptDeNovo.gtf.gz |
2.0 Mb |
(ftp)(http) |
GTF |
| GSM981253_hg19_wgEncodeCshlLongRnaSeqSknshCellPapTranscriptGencV10.gtf.gz |
5.1 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
