|
Status |
Public on Jul 22, 2011 |
Title |
CSHL_RnaSeq_NHEK_nucleus_longPolyA (superseded by GSE78592) |
Sample type |
SRA |
|
|
Source name |
NHEK
|
Organism |
Homo sapiens |
Characteristics |
datatype: RnaSeq datatype description: Sequencing analysis of RNA expression cell sex: F rnaextract: longPolyA rnaextract description: Poly(A)+ RNA longer than 200 nt biorep: 028N,027N,027N,028N labexpid: LID8798,LID8797,LID8798,LID8797 labversion: iIDR readtype: 2x76D readtype description: Paired 76 nt directed reads replicate: 3,4 spikeinpool: Nist14 rnaextract: longPolyA rnaextract description: Poly(A)+ RNA longer than 200 nt biorep: 027N labexpid: LID8797 readtype: 2x76D readtype description: Paired 76 n.t. directed reads replicate: 3 replicate description: tier 3
|
Biomaterial provider |
Lonza
|
Growth protocol |
Keratinocyte_protocol.pdf
|
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 Genome Analyzer IIx |
|
|
Description |
**************************** GSM765399 record metadata submitted on Jul 21 2011 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE78592 ****************************
|
Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlLongRnaSeq
|
|
|
Submission date |
Jul 21, 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Superseded by |
GSE78592 |
SRA |
SRX084677 |
BioSample |
SAMN00672632 |
Named Annotation |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapMinusRawSigRep3.bigWig |
Named Annotation |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapMinusRawSigRep4.bigWig |
Named Annotation |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapPlusRawSigRep3.bigWig |
Named Annotation |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapPlusRawSigRep4.bigWig |
Supplementary file |
Size |
Download |
File type/resource |
GSM765399_hg19_wgEncodeCshlLongRnaSeqNhekNucleusPapExonsDeNovo.gff.gz |
7.7 Mb |
(ftp)(http) |
GFF |
GSM765399_hg19_wgEncodeCshlLongRnaSeqNhekNucleusPapGeneDeNovoV2.gff.gz |
2.1 Mb |
(ftp)(http) |
GFF |
GSM765399_hg19_wgEncodeCshlLongRnaSeqNhekNucleusPapTranscriptDeNovoV2.gtf.gz |
2.6 Mb |
(ftp)(http) |
GTF |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapContigs.bedRnaElements.gz |
18.7 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapExonGencV3c.gtf.gz |
15.1 Mb |
(ftp)(http) |
GTF |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapGeneDeNovo.gtf.gz |
2.2 Mb |
(ftp)(http) |
GTF |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapGeneGencV3c.gtf.gz |
1.7 Mb |
(ftp)(http) |
GTF |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapJunctions.bedRnaElements.gz |
10.7 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapMinusRawSigRep3.bigWig |
850.5 Mb |
(ftp)(http) |
BIGWIG |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapMinusRawSigRep4.bigWig |
936.8 Mb |
(ftp)(http) |
BIGWIG |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapPlusRawSigRep3.bigWig |
885.0 Mb |
(ftp)(http) |
BIGWIG |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapPlusRawSigRep4.bigWig |
972.4 Mb |
(ftp)(http) |
BIGWIG |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapProtocolRep3.pdf.gz |
564.0 Kb |
(ftp)(http) |
PDF |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapProtocolRep4.pdf.gz |
559.5 Kb |
(ftp)(http) |
PDF |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapSpikeinsRep3.spikeins.bam |
52.6 Mb |
(ftp)(http) |
BAM |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapSpikeinsRep4.spikeins.bam |
22.1 Mb |
(ftp)(http) |
BAM |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapTranscriptDeNovo.gtf.gz |
20.0 Mb |
(ftp)(http) |
GTF |
GSM765399_wgEncodeCshlLongRnaSeqNhekNucleusPapTranscriptGencV3c.gtf.gz |
11.4 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |