|
| Status |
Public on Aug 07, 2012 |
| Title |
CSHL_RnaSeq_hMSC-AT_cell_total (superseded by GSE90271) |
| Sample type |
SRA |
| |
|
| Source name |
hMSC-AT
|
| 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: 065WC,065WC,066WC,066WC
labexpid: LID47097,LID47098,LID47098,LID47097
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: 065WC
labexpid: LID47097
readtype: 2x101D
readtype description: Paired 101 nt directed reads
replicate: 1
spikeinpool: Nist13
|
| Biomaterial provider |
PromoCell
|
| Growth protocol |
hMSCAT9061601.12_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 |
****************************
GSM981260 record metadata submitted on Aug 06 2012 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE90271
****************************
|
| Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlLongRnaSeq
|
| |
|
| Submission date |
Aug 06, 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 (2) |
| GSE26284 |
ENCODE Cold Spring Harbor Labs Long RNA-seq |
| GSE30567 |
ENCODE Cold Spring Harbor Labs Long RNA-seq (hg19) |
|
| Relations |
| Superseded by |
GSE90271 |
| SRA |
SRX174329 |
| BioSample |
SAMN01103830 |
| Named Annotation |
GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscat010260412CellTotalMinusRep1.bigWig |
| Named Annotation |
GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscat010260412CellTotalPlusRep1.bigWig |
| Named Annotation |
GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscat906160112CellTotalMinusRep2.bigWig |
| Named Annotation |
GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscat906160112CellTotalPlusRep2.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscat010260412CellTotalMinusRep1.bigWig |
214.5 Mb |
(ftp)(http) |
BIGWIG |
| GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscat010260412CellTotalPlusRep1.bigWig |
220.1 Mb |
(ftp)(http) |
BIGWIG |
| GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscat010260412CellTotalSpikeinsRep1.spikeins.bam |
142.5 Mb |
(ftp)(http) |
BAM |
| GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscat906160112CellTotalMinusRep2.bigWig |
370.6 Mb |
(ftp)(http) |
BIGWIG |
| GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscat906160112CellTotalPlusRep2.bigWig |
390.0 Mb |
(ftp)(http) |
BIGWIG |
| GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscat906160112CellTotalSpikeinsRep2.spikeins.bam |
287.8 Mb |
(ftp)(http) |
BAM |
| GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscatCellTotalContigs.bedRnaElements.gz |
27.1 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscatCellTotalExonsDeNovo.gff.gz |
19.4 Mb |
(ftp)(http) |
GFF |
| GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscatCellTotalExonsGencV10.gtf.gz |
19.7 Mb |
(ftp)(http) |
GTF |
| GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscatCellTotalGeneDeNovo.gff.gz |
5.8 Mb |
(ftp)(http) |
GFF |
| GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscatCellTotalGeneGencV10.gtf.gz |
1.8 Mb |
(ftp)(http) |
GTF |
| GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscatCellTotalJunctions.bedRnaElements.gz |
10.8 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscatCellTotalProtocolRep1.pdf.gz |
243.4 Kb |
(ftp)(http) |
PDF |
| GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscatCellTotalProtocolRep2.pdf.gz |
249.5 Kb |
(ftp)(http) |
PDF |
| GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscatCellTotalTranscriptDeNovo.gtf.gz |
6.4 Mb |
(ftp)(http) |
GTF |
| GSM981260_hg19_wgEncodeCshlLongRnaSeqHmscatCellTotalTranscriptGencV10.gtf.gz |
4.9 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
