|
| Status |
Public on Jul 22, 2011 |
| Title |
CSHL_RnaSeq_AG04450_cell_longNonPolyA (superseded by GSE78599) |
| Sample type |
SRA |
| |
|
| Source name |
AG04450
|
| 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: 017WC,018WC,018WC,017WC
labexpid: LID9001,LID9002,LID9002,LID9001
labversion: iIDR
readtype: 2x76D
readtype description: Paired 76 nt directed reads
replicate: 1,2
spikeinpool: Nist14
localization description: Whole cell
rnaextract: longNonPolyA
rnaextract description: Poly(A)- RNA longer than 200 nt
biorep: 017WC
labexpid: LID9001
readtype: 2x76D
readtype description: Paired 76 n.t. directed reads
replicate: 1
replicate description: tier 1
|
| Biomaterial provider |
Coriell
|
| Extracted molecule |
total 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 |
****************************
GSM765396 record metadata submitted on Jul 21 2011 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE78599
****************************
|
| 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 (2) |
| GSE26284 |
ENCODE Cold Spring Harbor Labs Long RNA-seq |
| GSE30567 |
ENCODE Cold Spring Harbor Labs Long RNA-seq (hg19) |
|
| Relations |
| Superseded by |
GSE78599 |
| SRA |
SRX084674 |
| BioSample |
SAMN00672629 |
| Named Annotation |
GSM765396_wgEncodeCshlLongRnaSeqAg04450CellLongnonpolyaMinusRawSigRep1.bigWig |
| Named Annotation |
GSM765396_wgEncodeCshlLongRnaSeqAg04450CellLongnonpolyaMinusRawSigRep2.bigWig |
| Named Annotation |
GSM765396_wgEncodeCshlLongRnaSeqAg04450CellLongnonpolyaPlusRawSigRep1.bigWig |
| Named Annotation |
GSM765396_wgEncodeCshlLongRnaSeqAg04450CellLongnonpolyaPlusRawSigRep2.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM765396_hg19_wgEncodeCshlLongRnaSeqAg04450CellPamExonsDeNovo.gff.gz |
9.1 Mb |
(ftp)(http) |
GFF |
| GSM765396_hg19_wgEncodeCshlLongRnaSeqAg04450CellPamGeneDeNovoV2.gff.gz |
4.1 Mb |
(ftp)(http) |
GFF |
| GSM765396_hg19_wgEncodeCshlLongRnaSeqAg04450CellPamTranscriptDeNovoV2.gtf.gz |
4.6 Mb |
(ftp)(http) |
GTF |
| GSM765396_wgEncodeCshlLongRnaSeqAg04450CellLongnonpolyaMinusRawSigRep1.bigWig |
778.0 Mb |
(ftp)(http) |
BIGWIG |
| GSM765396_wgEncodeCshlLongRnaSeqAg04450CellLongnonpolyaMinusRawSigRep2.bigWig |
150.4 Mb |
(ftp)(http) |
BIGWIG |
| GSM765396_wgEncodeCshlLongRnaSeqAg04450CellLongnonpolyaPlusRawSigRep1.bigWig |
804.8 Mb |
(ftp)(http) |
BIGWIG |
| GSM765396_wgEncodeCshlLongRnaSeqAg04450CellLongnonpolyaPlusRawSigRep2.bigWig |
153.4 Mb |
(ftp)(http) |
BIGWIG |
| GSM765396_wgEncodeCshlLongRnaSeqAg04450CellPamContigs.bedRnaElements.gz |
14.1 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM765396_wgEncodeCshlLongRnaSeqAg04450CellPamExonGencV3c.gtf.gz |
14.5 Mb |
(ftp)(http) |
GTF |
| GSM765396_wgEncodeCshlLongRnaSeqAg04450CellPamGeneDeNovo.gtf.gz |
2.6 Mb |
(ftp)(http) |
GTF |
| GSM765396_wgEncodeCshlLongRnaSeqAg04450CellPamGeneGencV3c.gtf.gz |
1.7 Mb |
(ftp)(http) |
GTF |
| GSM765396_wgEncodeCshlLongRnaSeqAg04450CellPamJunctions.bedRnaElements.gz |
5.0 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM765396_wgEncodeCshlLongRnaSeqAg04450CellPamSpikeinsRep1.spikeins.bam |
445.5 Mb |
(ftp)(http) |
BAM |
| GSM765396_wgEncodeCshlLongRnaSeqAg04450CellPamSpikeinsRep2.spikeins.bam |
613.9 Mb |
(ftp)(http) |
BAM |
| GSM765396_wgEncodeCshlLongRnaSeqAg04450CellPamTranscriptDeNovo.gtf.gz |
14.6 Mb |
(ftp)(http) |
GTF |
| GSM765396_wgEncodeCshlLongRnaSeqAg04450CellPamTranscriptGencV3c.gtf.gz |
11.1 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
