|
| Status |
Public on Aug 14, 2012 |
| Title |
CSHL_RnaSeq_NHDF_cell_total (superseded by GSE78610) |
| Sample type |
SRA |
| |
|
| Source name |
NHDF
|
| Organism |
Homo sapiens |
| Characteristics |
datatype: RnaSeq
datatype description: Sequencing analysis of RNA expression
rnaextract: total
rnaextract description: Total RNA extract (longer than 200 nt)
biorep: 050WC,050WC,049WC,049WC,050WC,049WC
labexpid: LID47247,LID47248,LID47247,LID47247,LID47248,LID47248
labversion: iIDR
readtype: 2x101D
readtype description: Paired 101 nt directed reads
replicate: 1,2
spikeinpool: Nist13
localization description: Whole cell
rnaextract: total
rnaextract description: Total RNA extract (longer than 200 nt)
biorep: 050WC
labexpid: LID47248
readtype: 2x101D
readtype description: Paired 101 nt directed reads
replicate: 2
spikeinpool: Nist13
|
| Biomaterial provider |
PromoCell
|
| Growth protocol |
NHDF7071701.2_Gingeras_protocol.pdf
|
| 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 HiSeq 2000 |
| |
|
| Description |
****************************
GSM984612 record metadata submitted on Aug 13 2012 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE78610
****************************
|
| Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlLongRnaSeq
|
| |
|
| Submission date |
Aug 13, 2012 |
| 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 |
GPL11154 |
| Series (1) |
| GSE30567 |
ENCODE Cold Spring Harbor Labs Long RNA-seq (hg19) |
|
| Relations |
| Superseded by |
GSE78610 |
| SRA |
SRX179437 |
| BioSample |
SAMN01121031 |
| Named Annotation |
GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdf00608013CellTotalMinusRep2.bigWig |
| Named Annotation |
GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdf00608013CellTotalPlusRep2.bigWig |
| Named Annotation |
GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdf70717012CellTotalMinusRep1.bigWig |
| Named Annotation |
GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdf70717012CellTotalPlusRep1.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdf00608013CellTotalMinusRep2.bigWig |
283.7 Mb |
(ftp)(http) |
BIGWIG |
| GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdf00608013CellTotalPlusRep2.bigWig |
291.6 Mb |
(ftp)(http) |
BIGWIG |
| GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdf00608013CellTotalSpikeinsRep2.spikeins.bam |
234.8 Mb |
(ftp)(http) |
BAM |
| GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdf70717012CellTotalMinusRep1.bigWig |
352.4 Mb |
(ftp)(http) |
BIGWIG |
| GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdf70717012CellTotalPlusRep1.bigWig |
367.7 Mb |
(ftp)(http) |
BIGWIG |
| GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdf70717012CellTotalSpikeinsRep1.spikeins.bam |
239.6 Mb |
(ftp)(http) |
BAM |
| GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdfCellTotalContigs.bedRnaElements.gz |
34.0 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdfCellTotalExonsDeNovo.gff.gz |
22.2 Mb |
(ftp)(http) |
GFF |
| GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdfCellTotalExonsGencV10.gtf.gz |
19.7 Mb |
(ftp)(http) |
GTF |
| GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdfCellTotalGeneDeNovo.gff.gz |
8.0 Mb |
(ftp)(http) |
GFF |
| GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdfCellTotalGeneGencV10.gtf.gz |
1.8 Mb |
(ftp)(http) |
GTF |
| GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdfCellTotalJunctions.bedRnaElements.gz |
12.4 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdfCellTotalProtocolRep1.pdf.gz |
301.5 Kb |
(ftp)(http) |
PDF |
| GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdfCellTotalProtocolRep2.pdf.gz |
295.4 Kb |
(ftp)(http) |
PDF |
| GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdfCellTotalTranscriptDeNovo.gtf.gz |
8.8 Mb |
(ftp)(http) |
GTF |
| GSM984612_hg19_wgEncodeCshlLongRnaSeqNhdfCellTotalTranscriptGencV10.gtf.gz |
4.9 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
