|
| Status |
Public on Nov 29, 2011 |
| Title |
CSHL_RnaSeq_K562_cytosol_longPolyA (superseded by GSE90220) |
| Sample type |
SRA |
| |
|
| Source name |
K562
|
| 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: 001C,002C,002C,001C
labexpid: LID8465,LID8466,LID8466,LID8465
labversion: iIDR
readtype: 2x76D
readtype description: Paired 76 nt directed reads
replicate: 1,2
spikeinpool: Nist14
localization description: The fluid between the cells outer membrane and the nucleus
rnaextract: longPolyA
rnaextract description: Poly(A)+ RNA longer than 200 nt
biorep: 001C
labexpid: LID8465
readtype: 2x76D
readtype description: Paired 76 n.t. directed reads
replicate: 1
replicate description: tier 1
|
| Biomaterial provider |
ATCC
|
| Growth protocol |
K562_protocol.pdf
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Instrument model unknown. ("Illumina Genome Analyzer" specified by default). For more information, see 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 |
****************************
GSM840137 record metadata submitted on Nov 29 2011 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE90220
****************************
|
| Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlLongRnaSeq
|
| |
|
| Submission date |
Nov 29, 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| Superseded by |
GSE90220 |
| SRA |
SRX110318 |
| BioSample |
SAMN00761803 |
| Named Annotation |
GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapMinusRawSigRep1.bigWig |
| Named Annotation |
GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapMinusRawSigRep2.bigWig |
| Named Annotation |
GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapPlusRawSigRep1.bigWig |
| Named Annotation |
GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapPlusRawSigRep2.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapContigs.bedRnaElements.gz |
8.1 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapExonsDeNovo.gff.gz |
5.6 Mb |
(ftp)(http) |
GFF |
| GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapExonsGencV7.gtf.gz |
18.1 Mb |
(ftp)(http) |
GTF |
| GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapGeneDeNovo.gtf.gz |
1.0 Mb |
(ftp)(http) |
GTF |
| GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapGeneDeNovoV2.gff.gz |
978.2 Kb |
(ftp)(http) |
GFF |
| GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapGeneGencV7.gtf.gz |
2.0 Mb |
(ftp)(http) |
GTF |
| GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapJunctions.bedRnaElements.gz |
7.7 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
| GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapMinusRawSigRep1.bigWig |
380.9 Mb |
(ftp)(http) |
BIGWIG |
| GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapMinusRawSigRep2.bigWig |
246.9 Mb |
(ftp)(http) |
BIGWIG |
| GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapPlusRawSigRep1.bigWig |
386.6 Mb |
(ftp)(http) |
BIGWIG |
| GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapPlusRawSigRep2.bigWig |
250.0 Mb |
(ftp)(http) |
BIGWIG |
| GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapProtocolRep1.pdf.gz |
1.0 Mb |
(ftp)(http) |
PDF |
| GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapProtocolRep2.pdf.gz |
1.0 Mb |
(ftp)(http) |
PDF |
| GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapSpikeinsRep1.spikeins.bam |
75.1 Mb |
(ftp)(http) |
BAM |
| GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapSpikeinsRep2.spikeins.bam |
33.0 Mb |
(ftp)(http) |
BAM |
| GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapTranscriptDeNovo.gtf.gz |
10.7 Mb |
(ftp)(http) |
GTF |
| GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapTranscriptDeNovoV2.gtf.gz |
1.3 Mb |
(ftp)(http) |
GTF |
| GSM840137_hg19_wgEncodeCshlLongRnaSeqK562CytosolPapTranscriptGencV7.gtf.gz |
4.8 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
