|
| Status |
Public on Aug 07, 2012 |
| Title |
CSHL_RnaSeq_MCF-7_nucleus_longPolyA (superseded by GSE90261) |
| Sample type |
SRA |
| |
|
| Source name |
MCF-7
|
| 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: 090N,089N,090N,089N,090N,089N
labexpid: LID46860,LID46859,LID46859,LID46860,LID46859,LID46860
labversion: iIDR
readtype: 2x101D
readtype description: Paired 101 nt directed reads
replicate: 3,4
spikeinpool: Nist14
localization description: Large membrane bound part of cell containing chromosomes and the bulk of the cell's DNA
rnaextract: longPolyA
rnaextract description: Poly(A)+ RNA longer than 200 nt
biorep: 089N,090N
labexpid: LID46859,LID46860
labversion: iIDR
readtype: 2x101D
readtype description: Paired 101 nt directed reads
spikeinpool: Nist14
|
| Biomaterial provider |
ATCC
|
| Extracted molecule |
polyA 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 |
****************************
GSM981245 record metadata submitted on Aug 06 2012 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE90261
****************************
|
| 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| Superseded by |
GSE90261 |
| SRA |
SRX174314 |
| BioSample |
SAMN01103815 |
| Named Annotation |
GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapMinusRep3.bigWig |
| Named Annotation |
GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapMinusRep4.bigWig |
| Named Annotation |
GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapPlusRep3.bigWig |
| Named Annotation |
GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapPlusRep4.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapContigs.bedRnaElements.gz |
35.1 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapExonsDeNovo.gff.gz |
24.1 Mb |
(ftp)(http) |
GFF |
| GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapExonsGencV10.gtf.gz |
20.3 Mb |
(ftp)(http) |
GTF |
| GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapGeneDeNovo.gff.gz |
6.8 Mb |
(ftp)(http) |
GFF |
| GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapGeneGencV10.gtf.gz |
1.9 Mb |
(ftp)(http) |
GTF |
| GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapJunctions.bedRnaElements.gz |
17.9 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapMinusRep3.bigWig |
344.6 Mb |
(ftp)(http) |
BIGWIG |
| GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapMinusRep4.bigWig |
319.7 Mb |
(ftp)(http) |
BIGWIG |
| GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapPlusRep3.bigWig |
359.0 Mb |
(ftp)(http) |
BIGWIG |
| GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapPlusRep4.bigWig |
333.3 Mb |
(ftp)(http) |
BIGWIG |
| GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapProtocolRep3.pdf.gz |
375.7 Kb |
(ftp)(http) |
PDF |
| GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapProtocolRep4.pdf.gz |
379.2 Kb |
(ftp)(http) |
PDF |
| GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapSpikeinsRep3.spikeins.bam |
476.9 Mb |
(ftp)(http) |
BAM |
| GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapSpikeinsRep4.spikeins.bam |
523.8 Mb |
(ftp)(http) |
BAM |
| GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapTranscriptDeNovo.gtf.gz |
7.6 Mb |
(ftp)(http) |
GTF |
| GSM981245_hg19_wgEncodeCshlLongRnaSeqMcf7NucleusPapTranscriptGencV10.gtf.gz |
5.2 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
