|
| Status |
Public on Jul 29, 2011 |
| Title |
CSHL_RnaSeq_H1-hESC_nucleus_longNonPolyA (superseded by GSE90253) |
| 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: 006N
labexpid: LID9199
labversion: iIDR
readtype: 2x76D
readtype description: Paired 76 nt directed reads
spikeinpool: Nist14
localization: nucleus
localization description: Large membrane bound part of cell containing chromosomes and the bulk of the cell's DNA
rnaextract: longNonPolyA
rnaextract description: Poly(A)- RNA longer than 200 nt
biorep: 006N
labexpid: LID9199
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 |
nuclear 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 |
****************************
GSM767841 record metadata submitted on Jul 27 2011 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE90253
****************************
|
| 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| Superseded by |
GSE90253 |
| SRA |
SRX085291 |
| BioSample |
SAMN00678384 |
| Named Annotation |
GSM767841_wgEncodeCshlLongRnaSeqH1hescNucleusLongnonpolyaMinusRawSigRep2.bigWig |
| Named Annotation |
GSM767841_wgEncodeCshlLongRnaSeqH1hescNucleusLongnonpolyaPlusRawSigRep2.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM767841_hg19_wgEncodeCshlLongRnaSeqH1hescNucleusPamContigsV2.bedRnaElements.gz |
30.0 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM767841_hg19_wgEncodeCshlLongRnaSeqH1hescNucleusPamExonsDeNovo.gff.gz |
10.7 Mb |
(ftp)(http) |
GFF |
| GSM767841_hg19_wgEncodeCshlLongRnaSeqH1hescNucleusPamGeneDeNovoV2.gff.gz |
6.5 Mb |
(ftp)(http) |
GFF |
| GSM767841_hg19_wgEncodeCshlLongRnaSeqH1hescNucleusPamTranscriptDeNovoV2.gtf.gz |
7.6 Mb |
(ftp)(http) |
GTF |
| GSM767841_wgEncodeCshlLongRnaSeqH1hescNucleusLongnonpolyaMinusRawSigRep2.bigWig |
281.5 Mb |
(ftp)(http) |
BIGWIG |
| GSM767841_wgEncodeCshlLongRnaSeqH1hescNucleusLongnonpolyaPlusRawSigRep2.bigWig |
299.2 Mb |
(ftp)(http) |
BIGWIG |
| GSM767841_wgEncodeCshlLongRnaSeqH1hescNucleusPamContigs.bedRnaElements.gz |
29.9 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM767841_wgEncodeCshlLongRnaSeqH1hescNucleusPamExonsGencV7.gtf.gz |
16.0 Mb |
(ftp)(http) |
GTF |
| GSM767841_wgEncodeCshlLongRnaSeqH1hescNucleusPamGeneDeNovo.gtf.gz |
5.3 Mb |
(ftp)(http) |
GTF |
| GSM767841_wgEncodeCshlLongRnaSeqH1hescNucleusPamGeneGencV7.gtf.gz |
1.4 Mb |
(ftp)(http) |
GTF |
| GSM767841_wgEncodeCshlLongRnaSeqH1hescNucleusPamJunctions.bedRnaElements.gz |
3.8 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM767841_wgEncodeCshlLongRnaSeqH1hescNucleusPamProtocolRep2.pdf.gz |
422.7 Kb |
(ftp)(http) |
PDF |
| GSM767841_wgEncodeCshlLongRnaSeqH1hescNucleusPamSpikeinsRep2.spikeins.bam |
147.7 Mb |
(ftp)(http) |
BAM |
| GSM767841_wgEncodeCshlLongRnaSeqH1hescNucleusPamTranscriptDeNovo.gtf.gz |
26.5 Mb |
(ftp)(http) |
GTF |
| GSM767841_wgEncodeCshlLongRnaSeqH1hescNucleusPamTranscriptGencV7.gtf.gz |
4.2 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
