|
Status |
Public on Jul 29, 2011 |
Title |
CSHL_RnaSeq_K562_nucleus_longNonPolyA (superseded by GSE90250) |
Sample type |
SRA |
|
|
Source name |
K562
|
Organism |
Homo sapiens |
Characteristics |
datatype: RnaSeq datatype description: Sequencing analysis of RNA expression rnaextract: longNonPolyA rnaextract description: Poly(A)- RNA longer than 200 nt biorep: 001N,002N,001N,002N labexpid: LID9195,LID9196,LID9195,LID9196 labversion: iIDR readtype: 2x76D readtype description: Paired 76 nt directed reads replicate: 1,2 spikeinpool: Nist14 localization description: Large membrane bound part of cell containing chromosomes and the bulk of the cell's DNA rnaextract: longNonPolyA rnaextract description: Poly(A)- RNA longer than 200 nt biorep: 001N labexpid: LID9195 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 |
nuclear 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 Genome Analyzer IIx |
|
|
Description |
**************************** GSM767844 record metadata submitted on Jul 27 2011 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE90250 ****************************
|
Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlLongRnaSeq
|
|
|
Submission date |
Jul 27, 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Superseded by |
GSE90250 |
SRA |
SRX085294 |
BioSample |
SAMN00678387 |
Named Annotation |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusLongnonpolyaMinusRawSigRep1.bigWig |
Named Annotation |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusLongnonpolyaMinusRawSigRep2.bigWig |
Named Annotation |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusLongnonpolyaPlusRawSigRep1.bigWig |
Named Annotation |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusLongnonpolyaPlusRawSigRep2.bigWig |
Supplementary file |
Size |
Download |
File type/resource |
GSM767844_hg19_wgEncodeCshlLongRnaSeqK562NucleusPamExonsDeNovo.gff.gz |
10.2 Mb |
(ftp)(http) |
GFF |
GSM767844_hg19_wgEncodeCshlLongRnaSeqK562NucleusPamGeneDeNovoV2.gff.gz |
6.8 Mb |
(ftp)(http) |
GFF |
GSM767844_hg19_wgEncodeCshlLongRnaSeqK562NucleusPamTranscriptDeNovoV2.gtf.gz |
7.3 Mb |
(ftp)(http) |
GTF |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusLongnonpolyaMinusRawSigRep1.bigWig |
309.0 Mb |
(ftp)(http) |
BIGWIG |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusLongnonpolyaMinusRawSigRep2.bigWig |
291.1 Mb |
(ftp)(http) |
BIGWIG |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusLongnonpolyaPlusRawSigRep1.bigWig |
311.7 Mb |
(ftp)(http) |
BIGWIG |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusLongnonpolyaPlusRawSigRep2.bigWig |
291.9 Mb |
(ftp)(http) |
BIGWIG |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusPamContigs.bedRnaElements.gz |
10.7 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusPamExonsGencV7.gtf.gz |
17.7 Mb |
(ftp)(http) |
GTF |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusPamGeneDeNovo.gtf.gz |
5.2 Mb |
(ftp)(http) |
GTF |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusPamGeneGencV7.gtf.gz |
2.0 Mb |
(ftp)(http) |
GTF |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusPamJunctions.bedRnaElements.gz |
6.2 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusPamProtocolRep1.pdf.gz |
423.1 Kb |
(ftp)(http) |
PDF |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusPamProtocolRep2.pdf.gz |
429.0 Kb |
(ftp)(http) |
PDF |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusPamSpikeinsRep1.spikeins.bam |
227.0 Mb |
(ftp)(http) |
BAM |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusPamSpikeinsRep2.spikeins.bam |
171.9 Mb |
(ftp)(http) |
BAM |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusPamTranscriptDeNovo.gtf.gz |
25.8 Mb |
(ftp)(http) |
GTF |
GSM767844_wgEncodeCshlLongRnaSeqK562NucleusPamTranscriptGencV7.gtf.gz |
4.7 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |