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Sample GSM984611 Query DataSets for GSM984611
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Title CSHL_RnaSeq_HCH_cell_total (superseded by GSE78607)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Superseded by GSE78607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 SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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