|
| Status |
Public on Jul 22, 2011 |
| Title |
CSHL_RnaSeq_NHLF_cell_longNonPolyA (superseded by GSE78598) |
| 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: longNonPolyA
rnaextract description: Poly(A)- RNA longer than 200 nt
biorep: 033WC,034WC,033WC,034WC
labexpid: LID8828,LID8829,LID8828,LID8829
labversion: iIDR
readtype: 2x76D
readtype description: Paired 76 nt directed reads
replicate: 1,2
spikeinpool: Nist14
biorep: 033WC
labexpid: LID8828
readtype: 2x76D
readtype description: Paired 76 n.t. directed reads
replicate: 1
replicate description: tier 1
|
| Biomaterial provider |
Lonza
|
| 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 |
****************************
GSM765389 record metadata submitted on Jul 21 2011 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE78598
****************************
|
| 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| Superseded by |
GSE78598 |
| SRA |
SRX084667 |
| BioSample |
SAMN00672622 |
| Named Annotation |
GSM765389_wgEncodeCshlLongRnaSeqNhlfCellLongnonpolyaMinusRawSigRep1.bigWig |
| Named Annotation |
GSM765389_wgEncodeCshlLongRnaSeqNhlfCellLongnonpolyaMinusRawSigRep2.bigWig |
| Named Annotation |
GSM765389_wgEncodeCshlLongRnaSeqNhlfCellLongnonpolyaPlusRawSigRep1.bigWig |
| Named Annotation |
GSM765389_wgEncodeCshlLongRnaSeqNhlfCellLongnonpolyaPlusRawSigRep2.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM765389_hg19_wgEncodeCshlLongRnaSeqNhlfCellPamExonsDeNovo.gff.gz |
3.0 Mb |
(ftp)(http) |
GFF |
| GSM765389_hg19_wgEncodeCshlLongRnaSeqNhlfCellPamGeneDeNovoV2.gff.gz |
662.9 Kb |
(ftp)(http) |
GFF |
| GSM765389_hg19_wgEncodeCshlLongRnaSeqNhlfCellPamTranscriptDeNovoV2.gtf.gz |
847.1 Kb |
(ftp)(http) |
GTF |
| GSM765389_wgEncodeCshlLongRnaSeqNhlfCellLongnonpolyaMinusRawSigRep1.bigWig |
102.5 Mb |
(ftp)(http) |
BIGWIG |
| GSM765389_wgEncodeCshlLongRnaSeqNhlfCellLongnonpolyaMinusRawSigRep2.bigWig |
103.4 Mb |
(ftp)(http) |
BIGWIG |
| GSM765389_wgEncodeCshlLongRnaSeqNhlfCellLongnonpolyaPlusRawSigRep1.bigWig |
105.1 Mb |
(ftp)(http) |
BIGWIG |
| GSM765389_wgEncodeCshlLongRnaSeqNhlfCellLongnonpolyaPlusRawSigRep2.bigWig |
106.4 Mb |
(ftp)(http) |
BIGWIG |
| GSM765389_wgEncodeCshlLongRnaSeqNhlfCellPamContigs.bedRnaElements.gz |
4.1 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM765389_wgEncodeCshlLongRnaSeqNhlfCellPamExonGencV3c.gtf.gz |
13.8 Mb |
(ftp)(http) |
GTF |
| GSM765389_wgEncodeCshlLongRnaSeqNhlfCellPamGeneDeNovo.gtf.gz |
356.2 Kb |
(ftp)(http) |
GTF |
| GSM765389_wgEncodeCshlLongRnaSeqNhlfCellPamGeneGencV3c.gtf.gz |
1.6 Mb |
(ftp)(http) |
GTF |
| GSM765389_wgEncodeCshlLongRnaSeqNhlfCellPamJunctions.bedRnaElements.gz |
3.5 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM765389_wgEncodeCshlLongRnaSeqNhlfCellPamProtocolRep1.pdf.gz |
429.4 Kb |
(ftp)(http) |
PDF |
| GSM765389_wgEncodeCshlLongRnaSeqNhlfCellPamProtocolRep2.pdf.gz |
435.1 Kb |
(ftp)(http) |
PDF |
| GSM765389_wgEncodeCshlLongRnaSeqNhlfCellPamSpikeinsRep1.spikeins.bam |
970.2 Mb |
(ftp)(http) |
BAM |
| GSM765389_wgEncodeCshlLongRnaSeqNhlfCellPamSpikeinsRep2.spikeins.bam |
897.9 Mb |
(ftp)(http) |
BAM |
| GSM765389_wgEncodeCshlLongRnaSeqNhlfCellPamTranscriptDeNovo.gtf.gz |
2.0 Mb |
(ftp)(http) |
GTF |
| GSM765389_wgEncodeCshlLongRnaSeqNhlfCellPamTranscriptGencV3c.gtf.gz |
10.5 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
