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Sample GSM816665 Query DataSets for GSM816665
Status Public on Oct 14, 2011
Title Duke_DnaseSeq_GM12878
Sample type SRA
 
Source name GM12878
Organism Homo sapiens
Characteristics datatype: DnaseSeq
datatype description: DNaseI HS Sequencing
cell description: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus
controlid: GM12878/Input
labversion: baseAlignCounts.pl v 1,DNaseHS,fseq v 1.84, iff_GM12878,p-value cutoff: 0.05,1% ENCODE array platform validation tests
replicate: 1,3,2
cell description: lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus
cell karyotype: normal
cell lineage: mesoderm
cell sex: F
treatment: None
treatment description: No special treatment or protocol applies
controlid: GM12878/Input
labversion: align_on_cluster_bwa.pl v 1
replicate: 1
replicate description: tier 1
Biomaterial provider Coriell; http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=GM12878
Treatment protocol None
Growth protocol GM12878_protocol.pdf
Extracted molecule genomic DNA
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=wgEncodeOpenChromDnase
 
Library strategy DNase-Hypersensitivity
Library source genomic
Library selection DNAse
Instrument model Illumina Genome Analyzer
 
Data processing http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeOpenChromDnase
 
Submission date Oct 13, 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 GPL9052
Series (2)
GSE32970 Open Chromatin by DNaseI HS from ENCODE/OpenChrom(Duke University)
GSE51334 DNA replication-timing boundaries separate stable chromosome domains with cell-type-specific functions
Relations
Reanalyzed by GSM1002651
Reanalyzed by GSE53962
Reanalyzed by GSE54296
Reanalyzed by GSE59016
Reanalyzed by GSE72089
SRA SRX100914
BioSample SAMN00739125
Named Annotation GSM816665_hg19_wgEncodeOpenChromDnaseGm12878BaseOverlapSignal.bigWig
Named Annotation GSM816665_hg19_wgEncodeOpenChromDnaseGm12878Sig.bigWig

Supplementary file Size Download File type/resource
GSM816665_hg19_wgEncodeOpenChromDnaseGm12878BaseOverlapSignal.bigWig 1.4 Gb (ftp)(http) BIGWIG
GSM816665_hg19_wgEncodeOpenChromDnaseGm12878Pk.narrowPeak.gz 2.1 Mb (ftp)(http) NARROWPEAK
GSM816665_hg19_wgEncodeOpenChromDnaseGm12878Sig.bigWig 3.2 Gb (ftp)(http) BIGWIG
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
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