|
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CSHL_RnaSeq_K562_cytosol_longPolyA (superseded by GSE90220) |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Superseded by |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 |