|
Status |
Public on Aug 14, 2012 |
Title |
CSHL_RnaSeq_HCH_cell_total (superseded by GSE78607) |
Sample type |
SRA |
|
|
Source name |
HCH
|
Organism |
Homo sapiens |
Characteristics |
datatype: RnaSeq datatype description: Sequencing analysis of RNA expression rnaextract: total rnaextract description: Total RNA extract (longer than 200 nt) biorep: 059WC,060WC,059WC,059WC,060WC,060WC labexpid: LID47024,LID47025,LID47024,LID47025,LID47025,LID47024 labversion: iIDR readtype: 2x101D readtype description: Paired 101 nt directed reads replicate: 1,2 spikeinpool: Nist13 localization description: Whole cell rnaextract: total rnaextract description: Total RNA extract (longer than 200 nt) biorep: 059WC labexpid: LID47024 readtype: 2x101D readtype description: Paired 101 nt directed reads replicate: 1 spikeinpool: Nist13
|
Biomaterial provider |
PromoCell
|
Growth protocol |
HCH0011308.2P_Gingeras_protocol.pdf
|
Extracted molecule |
total 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 |
**************************** GSM984611 record metadata submitted on Aug 13 2012 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE78607 ****************************
|
Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlLongRnaSeq
|
|
|
Submission date |
Aug 13, 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 (1) |
GSE30567 |
ENCODE Cold Spring Harbor Labs Long RNA-seq (hg19) |
|
Relations |
Superseded by |
GSE78607 |
SRA |
SRX179436 |
BioSample |
SAMN01121030 |
Named Annotation |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHch00113082pCellTotalMinusRep1.bigWig |
Named Annotation |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHch00113082pCellTotalPlusRep1.bigWig |
Named Annotation |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHch81008082CellTotalMinusRep2.bigWig |
Named Annotation |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHch81008082CellTotalPlusRep2.bigWig |
Supplementary file |
Size |
Download |
File type/resource |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHch00113082pCellTotalMinusRep1.bigWig |
369.8 Mb |
(ftp)(http) |
BIGWIG |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHch00113082pCellTotalPlusRep1.bigWig |
377.0 Mb |
(ftp)(http) |
BIGWIG |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHch00113082pCellTotalSpikeinsRep1.spikeins.bam |
160.3 Mb |
(ftp)(http) |
BAM |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHch81008082CellTotalMinusRep2.bigWig |
418.9 Mb |
(ftp)(http) |
BIGWIG |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHch81008082CellTotalPlusRep2.bigWig |
426.9 Mb |
(ftp)(http) |
BIGWIG |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHch81008082CellTotalSpikeinsRep2.spikeins.bam |
125.0 Mb |
(ftp)(http) |
BAM |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHchCellTotalContigs.bedRnaElements.gz |
31.0 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHchCellTotalExonsDeNovo.gff.gz |
21.2 Mb |
(ftp)(http) |
GFF |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHchCellTotalExonsGencV10.gtf.gz |
19.8 Mb |
(ftp)(http) |
GTF |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHchCellTotalGeneDeNovo.gff.gz |
6.5 Mb |
(ftp)(http) |
GFF |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHchCellTotalGeneGencV10.gtf.gz |
1.8 Mb |
(ftp)(http) |
GTF |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHchCellTotalJunctions.bedRnaElements.gz |
16.3 Mb |
(ftp)(http) |
BEDRNAELEMENTS |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHchCellTotalProtocolRep1.pdf.gz |
299.5 Kb |
(ftp)(http) |
PDF |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHchCellTotalProtocolRep2.pdf.gz |
328.7 Kb |
(ftp)(http) |
PDF |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHchCellTotalTranscriptDeNovo.gtf.gz |
7.1 Mb |
(ftp)(http) |
GTF |
GSM984611_hg19_wgEncodeCshlLongRnaSeqHchCellTotalTranscriptGencV10.gtf.gz |
5.0 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |