|
Status |
Public on Jul 22, 2011 |
Title |
CSHL_RnaSeq_NHLF_cell_longPolyA (superseded by GSE78595) |
Sample type |
SRA |
|
|
Source name |
NHLF
|
Organism |
Homo sapiens |
Characteristics |
datatype: RnaSeq datatype description: Sequencing analysis of RNA expression cell description: lung fibroblasts cell karyotype: normal rnaextract: longPolyA rnaextract description: Poly(A)+ RNA longer than 200 nt biorep: 033WC,034WC,033WC,034WC labexpid: LID8701,LID8692,LID8701,LID8692 labversion: iIDR readtype: 2x76D readtype description: Paired 76 nt directed reads replicate: 1,2 spikeinpool: Nist14 biorep: 033WC labexpid: LID8692 readtype: 2x76D readtype description: Paired 76 n.t. directed reads replicate: 1 replicate description: tier 1 spikeinpool: 14
|
Biomaterial provider |
Lonza
|
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 Genome Analyzer IIx |
|
|
Description |
**************************** GSM765394 record metadata submitted on July 11, 2011 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE78595 ****************************
|
Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlLongRnaSeq
|
|
|
Submission date |
Jul 21, 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 (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Superseded by |
GSE78595 |
SRA |
SRX084672 |
BioSample |
SAMN00672627 |
Named Annotation |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapMinusRawSigRep1.bigWig |
Named Annotation |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapMinusRawSigRep2.bigWig |
Named Annotation |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapPlusRawSigRep1.bigWig |
Named Annotation |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapPlusRawSigRep2.bigWig |
Supplementary file |
Size |
Download |
File type/resource |
GSM765394_hg19_wgEncodeCshlLongRnaSeqNhlfCellPapExonsDeNovo.gff.gz |
6.2 Mb |
(ftp)(http) |
GFF |
GSM765394_hg19_wgEncodeCshlLongRnaSeqNhlfCellPapGeneDeNovoV2.gff.gz |
880.5 Kb |
(ftp)(http) |
GFF |
GSM765394_hg19_wgEncodeCshlLongRnaSeqNhlfCellPapTranscriptDeNovoV2.gtf.gz |
1.2 Mb |
(ftp)(http) |
GTF |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapContigs.bedRnaElements.gz |
10.1 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapExonGencV3c.gtf.gz |
15.2 Mb |
(ftp)(http) |
GTF |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapGeneDeNovo.gtf.gz |
904.5 Kb |
(ftp)(http) |
GTF |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapGeneGencV3c.gtf.gz |
1.7 Mb |
(ftp)(http) |
GTF |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapJunctions.bedRnaElements.gz |
8.7 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapMinusRawSigRep1.bigWig |
399.0 Mb |
(ftp)(http) |
BIGWIG |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapMinusRawSigRep2.bigWig |
442.5 Mb |
(ftp)(http) |
BIGWIG |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapPlusRawSigRep1.bigWig |
410.4 Mb |
(ftp)(http) |
BIGWIG |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapPlusRawSigRep2.bigWig |
454.9 Mb |
(ftp)(http) |
BIGWIG |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapProtocolRep1.pdf.gz |
578.9 Kb |
(ftp)(http) |
PDF |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapProtocolRep2.pdf.gz |
611.4 Kb |
(ftp)(http) |
PDF |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapSpikeinsRep1.spikeins.bam |
116.8 Mb |
(ftp)(http) |
BAM |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapSpikeinsRep2.spikeins.bam |
183.5 Mb |
(ftp)(http) |
BAM |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapTranscriptDeNovo.gtf.gz |
12.6 Mb |
(ftp)(http) |
GTF |
GSM765394_wgEncodeCshlLongRnaSeqNhlfCellPapTranscriptGencV3c.gtf.gz |
11.5 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |