|
| Status |
Public on Jul 13, 2011 |
| Title |
CSHL_RnaSeq_HMEC_cell_longPolyA (superseded by GSE78586) |
| Sample type |
SRA |
| |
|
| Source name |
HMEC
|
| Organism |
Homo sapiens |
| Characteristics |
datatype: RnaSeq
datatype description: Sequencing analysis of RNA expression
cell karyotype: normal
rnaextract: longPolyA
rnaextract description: Poly(A)+ RNA longer than 200 nt
biorep: 036WC
labexpid: LID8695
labversion: iIDR
readtype: 2x76D
readtype description: Paired 76 nt directed reads
replicate: 1
spikeinpool: Nist14
rnaextract description: Poly(A)+ RNA longer than 200 nt
biorep: 036WC
labexpid: LID8695
labversion: iIDR
spikeinpool: NIST14
|
| Biomaterial provider |
Lonza
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Instrument model unknown. ("Illumina Genome Analyzer" specified by default). For more information, see 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 |
****************************
GSM758571 record metadata submitted on July 11, 2011 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE78586
****************************
|
| Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlLongRnaSeq
|
| |
|
| Submission date |
Jul 11, 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| Superseded by |
GSE78586 |
| SRA |
SRX082577 |
| BioSample |
SAMN00634082 |
| Named Annotation |
GSM758571_wgEncodeCshlLongRnaSeqHmecCellPapMinusRawSigRep1.bigWig |
| Named Annotation |
GSM758571_wgEncodeCshlLongRnaSeqHmecCellPapPlusRawSigRep1.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM758571_hg19_wgEncodeCshlLongRnaSeqHmecCellPapContigsV2.bedRnaElements.gz |
10.2 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM758571_hg19_wgEncodeCshlLongRnaSeqHmecCellPapExonsDeNovo.gff.gz |
4.9 Mb |
(ftp)(http) |
GFF |
| GSM758571_hg19_wgEncodeCshlLongRnaSeqHmecCellPapExonsGencV7.gtf.gz |
16.3 Mb |
(ftp)(http) |
GTF |
| GSM758571_hg19_wgEncodeCshlLongRnaSeqHmecCellPapGeneDeNovoV2.gff.gz |
582.6 Kb |
(ftp)(http) |
GFF |
| GSM758571_hg19_wgEncodeCshlLongRnaSeqHmecCellPapGeneGencV7.gtf.gz |
1.8 Mb |
(ftp)(http) |
GTF |
| GSM758571_hg19_wgEncodeCshlLongRnaSeqHmecCellPapTranscriptDeNovoV2.gtf.gz |
923.4 Kb |
(ftp)(http) |
GTF |
| GSM758571_hg19_wgEncodeCshlLongRnaSeqHmecCellPapTranscriptGencV7.gtf.gz |
4.3 Mb |
(ftp)(http) |
GTF |
| GSM758571_wgEncodeCshlLongRnaSeqHmecCellPapContigs.bedRnaElements.gz |
10.1 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM758571_wgEncodeCshlLongRnaSeqHmecCellPapExonGencV3c.gtf.gz |
13.2 Mb |
(ftp)(http) |
GTF |
| GSM758571_wgEncodeCshlLongRnaSeqHmecCellPapGeneDeNovo.gtf.gz |
619.5 Kb |
(ftp)(http) |
GTF |
| GSM758571_wgEncodeCshlLongRnaSeqHmecCellPapGeneGencV3c.gtf.gz |
1.5 Mb |
(ftp)(http) |
GTF |
| GSM758571_wgEncodeCshlLongRnaSeqHmecCellPapJunctions.bedRnaElements.gz |
5.7 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM758571_wgEncodeCshlLongRnaSeqHmecCellPapMinusRawSigRep1.bigWig |
373.2 Mb |
(ftp)(http) |
BIGWIG |
| GSM758571_wgEncodeCshlLongRnaSeqHmecCellPapPlusRawSigRep1.bigWig |
385.3 Mb |
(ftp)(http) |
BIGWIG |
| GSM758571_wgEncodeCshlLongRnaSeqHmecCellPapProtocolRep1.pdf.gz |
584.5 Kb |
(ftp)(http) |
PDF |
| GSM758571_wgEncodeCshlLongRnaSeqHmecCellPapSpikeinsRep1.spikeins.bam |
113.2 Mb |
(ftp)(http) |
BAM |
| GSM758571_wgEncodeCshlLongRnaSeqHmecCellPapTranscriptDeNovo.gtf.gz |
8.2 Mb |
(ftp)(http) |
GTF |
| GSM758571_wgEncodeCshlLongRnaSeqHmecCellPapTranscriptGencV3c.gtf.gz |
10.3 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
