|
Status |
Public on Jul 13, 2011 |
Title |
CSHL_RnaSeq_AG04450_cell_longPolyA (superseded by GSE78585) |
Sample type |
SRA |
|
|
Source name |
AG04450
|
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: 018WC,017WC,018WC,017WC labexpid: LID8965,LID8966,LID8966,LID8965 labversion: iIDR readtype: 2x76D readtype description: Paired 76 nt directed reads replicate: 1,2 spikeinpool: Nist14 localization description: Whole cell rnaextract: longPolyA rnaextract description: Poly(A)+ RNA longer than 200 nt biorep: 017WC,018WC labexpid: LID8965,LID8966 labversion: iIDR spikeinpool: NIST14
|
Biomaterial provider |
Coriell; http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=AG04450
|
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 |
**************************** GSM758561 record metadata submitted on Jul 11 2011 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE78585 ****************************
|
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 (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Superseded by |
GSE78585 |
SRA |
SRX082567 |
BioSample |
SAMN00634072 |
Named Annotation |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapMinusRawSigRep1.bigWig |
Named Annotation |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapMinusRawSigRep2.bigWig |
Named Annotation |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapPlusRawSigRep1.bigWig |
Named Annotation |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapPlusRawSigRep2.bigWig |
Supplementary file |
Size |
Download |
File type/resource |
GSM758561_hg19_wgEncodeCshlLongRnaSeqAg04450CellPapExonsDeNovo.gff.gz |
6.6 Mb |
(ftp)(http) |
GFF |
GSM758561_hg19_wgEncodeCshlLongRnaSeqAg04450CellPapExonsGencV7.gtf.gz |
18.6 Mb |
(ftp)(http) |
GTF |
GSM758561_hg19_wgEncodeCshlLongRnaSeqAg04450CellPapGeneDeNovoV2.gff.gz |
1.1 Mb |
(ftp)(http) |
GFF |
GSM758561_hg19_wgEncodeCshlLongRnaSeqAg04450CellPapGeneGencV7.gtf.gz |
2.0 Mb |
(ftp)(http) |
GTF |
GSM758561_hg19_wgEncodeCshlLongRnaSeqAg04450CellPapTranscriptDeNovoV2.gtf.gz |
1.5 Mb |
(ftp)(http) |
GTF |
GSM758561_hg19_wgEncodeCshlLongRnaSeqAg04450CellPapTranscriptGencV7.gtf.gz |
5.0 Mb |
(ftp)(http) |
GTF |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapContigs.bedRnaElements.gz |
12.1 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapExonGencV3c.gtf.gz |
15.0 Mb |
(ftp)(http) |
GTF |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapGeneDeNovo.gtf.gz |
1.2 Mb |
(ftp)(http) |
GTF |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapGeneGencV3c.gtf.gz |
1.7 Mb |
(ftp)(http) |
GTF |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapJunctions.bedRnaElements.gz |
8.7 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapMinusRawSigRep1.bigWig |
572.0 Mb |
(ftp)(http) |
BIGWIG |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapMinusRawSigRep2.bigWig |
534.0 Mb |
(ftp)(http) |
BIGWIG |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapPlusRawSigRep1.bigWig |
587.8 Mb |
(ftp)(http) |
BIGWIG |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapPlusRawSigRep2.bigWig |
549.3 Mb |
(ftp)(http) |
BIGWIG |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapProtocolRep1.pdf.gz |
620.2 Kb |
(ftp)(http) |
PDF |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapProtocolRep2.pdf.gz |
628.5 Kb |
(ftp)(http) |
PDF |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapSpikeinsRep1.spikeins.bam |
110.4 Mb |
(ftp)(http) |
BAM |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapSpikeinsRep2.spikeins.bam |
156.8 Mb |
(ftp)(http) |
BAM |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapTranscriptDeNovo.gtf.gz |
14.1 Mb |
(ftp)(http) |
GTF |
GSM758561_wgEncodeCshlLongRnaSeqAg04450CellPapTranscriptGencV3c.gtf.gz |
11.5 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |