|
| Status |
Public on Jul 29, 2011 |
| Title |
CSHL_RnaSeq_H1-hESC_cytosol_longNonPolyA (superseded by GSE90252) |
| Sample type |
SRA |
| |
|
| Source name |
H1-hESC
|
| Organism |
Homo sapiens |
| Characteristics |
datatype: RnaSeq
datatype description: Sequencing analysis of RNA expression
rnaextract: longNonPolyA
rnaextract description: Poly(A)- RNA longer than 200 nt
biorep: 006C
labexpid: LID18549
labversion: iIDR
readtype: 2x76D
readtype description: Paired 76 nt directed reads
spikeinpool: Nist14
localization: cytosol
localization description: The fluid between the cells outer membrane and the nucleus
rnaextract: longNonPolyA
rnaextract description: Poly(A)- RNA longer than 200 nt
biorep: 006C
labexpid: LID18549
readtype: 2x76D
readtype description: Paired 76 n.t. directed reads
replicate: 2
replicate description: tier 2
|
| Biomaterial provider |
WiCell Research Institute
|
| Growth protocol |
missing
|
| Extracted molecule |
cytoplasmic 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 Genome Analyzer IIx |
| |
|
| Description |
****************************
GSM767842 record metadata submitted on Jul 27 2011 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE90252
****************************
|
| Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlLongRnaSeq
|
| |
|
| Submission date |
Jul 27, 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| Superseded by |
GSE90252 |
| SRA |
SRX085292 |
| BioSample |
SAMN00678385 |
| Named Annotation |
GSM767842_wgEncodeCshlLongRnaSeqH1hescCytosolLongnonpolyaMinusRawSigRep2.bigWig |
| Named Annotation |
GSM767842_wgEncodeCshlLongRnaSeqH1hescCytosolLongnonpolyaPlusRawSigRep2.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM767842_hg19_wgEncodeCshlLongRnaSeqH1hescCytosolPamContigsV2.bedRnaElements.gz |
14.2 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM767842_hg19_wgEncodeCshlLongRnaSeqH1hescCytosolPamExonsDeNovo.gff.gz |
3.9 Mb |
(ftp)(http) |
GFF |
| GSM767842_hg19_wgEncodeCshlLongRnaSeqH1hescCytosolPamGeneDeNovoV2.gff.gz |
686.8 Kb |
(ftp)(http) |
GFF |
| GSM767842_hg19_wgEncodeCshlLongRnaSeqH1hescCytosolPamTranscriptDeNovoV2.gtf.gz |
1.0 Mb |
(ftp)(http) |
GTF |
| GSM767842_wgEncodeCshlLongRnaSeqH1hescCytosolLongnonpolyaMinusRawSigRep2.bigWig |
38.1 Mb |
(ftp)(http) |
BIGWIG |
| GSM767842_wgEncodeCshlLongRnaSeqH1hescCytosolLongnonpolyaPlusRawSigRep2.bigWig |
39.9 Mb |
(ftp)(http) |
BIGWIG |
| GSM767842_wgEncodeCshlLongRnaSeqH1hescCytosolPamContigs.bedRnaElements.gz |
14.1 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM767842_wgEncodeCshlLongRnaSeqH1hescCytosolPamExonsGencV7.gtf.gz |
15.5 Mb |
(ftp)(http) |
GTF |
| GSM767842_wgEncodeCshlLongRnaSeqH1hescCytosolPamGeneDeNovo.gtf.gz |
596.1 Kb |
(ftp)(http) |
GTF |
| GSM767842_wgEncodeCshlLongRnaSeqH1hescCytosolPamGeneGencV7.gtf.gz |
1.4 Mb |
(ftp)(http) |
GTF |
| GSM767842_wgEncodeCshlLongRnaSeqH1hescCytosolPamJunctions.bedRnaElements.gz |
2.0 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM767842_wgEncodeCshlLongRnaSeqH1hescCytosolPamProtocolRep2.pdf.gz |
494.6 Kb |
(ftp)(http) |
PDF |
| GSM767842_wgEncodeCshlLongRnaSeqH1hescCytosolPamSpikeinsRep2.spikeins.bam |
135.1 Mb |
(ftp)(http) |
BAM |
| GSM767842_wgEncodeCshlLongRnaSeqH1hescCytosolPamTranscriptDeNovo.gtf.gz |
4.6 Mb |
(ftp)(http) |
GTF |
| GSM767842_wgEncodeCshlLongRnaSeqH1hescCytosolPamTranscriptGencV7.gtf.gz |
4.1 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
