NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM803341 Query DataSets for GSM803341
Status Public on Sep 29, 2011
Title HudsonAlpha_ChipSeq_GM12878_RXRA_PCR1x
Sample type SRA
 
Source name GM12878
Organism Homo sapiens
Characteristics datatype: ChipSeq
datatype description: Chromatin IP Sequencing
cell description: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus
antibody antibodydescription: RXRa(D-20) is an affinity purified rabbit polyclonal antibody raised against a peptide mapping at the N-terminus of RXRalpha of human origin. Recommended for detection of RXRalpha of m, r and h origin by WB, IP, IF, IHC(P) and ELISA. Antibody Target: RXRA
antibody targetdescription: Retinoid X receptors (RXRs) and retinoic acid receptors (RARs), are nuclear receptors that mediate the biological effects of retinoids by their involvement in retinoic acid-mediated gene activation. These receptors exert their action by binding, as homodimers or heterodimers, to specific sequences in the promoters of target genes and regulating their transcription. The protein encoded by this gene is a member of the steroid and thyroid hormone receptor superfamily of transcriptional regulators.
antibody vendorname: Santa Cruz Biotechnology
antibody vendorid: sc-553
protocol description: one 15-cycle round of PCR (Myers)
controlid: SL1394,SL1395
labexpid: SL1265,SL1063
replicate: 1,2
antibody antibodydescription: RXRa(D-20) is an affinity purified rabbit polyclonal antibody raised against a peptide mapping at the N-terminus of RXRalpha of human origin. Recommended for detection of RXRalpha of m, r and h origin by WB, IP, IF, IHC(P) and ELISA.
antibody targetdescription: Retinoid X receptors (RXRs) and retinoic acid receptors (RARs), are nuclear receptors that mediate the biological effects of retinoids by their involvement in retinoic acid-mediated gene activation. These receptors exert their action by binding, as homodimers or heterodimers, to specific sequences in the promoters of target genes and regulating their transcription. The protein encoded by this gene is a member of the steroid and thyroid hormone receptor superfamily of transcriptional regulators.
antibody vendorname: Santa Cruz Biotech
antibody vendorid: sc-553
treatment: None
treatment description: No special treatment or protocol applies
protocol: PCR1x
protocol description: 1-cycle of PCR (Myers)
controlid: SL1394
labexpid: SL1063
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=wgEncodeHaibTfbs
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina Genome Analyzer
 
Data processing http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeHaibTfbs
 
Submission date Sep 28, 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)
GSE32465 Transcription Factor Binding Sites by ChIP-seq from ENCODE/HAIB
GSE51334 DNA replication-timing boundaries separate stable chromosome domains with cell-type-specific functions
Relations
SRA SRX100386
BioSample SAMN00738303
Named Annotation GSM803341_hg19_wgEncodeHaibTfbsGm12878RxraPcr1xRawRep1.bigWig
Named Annotation GSM803341_hg19_wgEncodeHaibTfbsGm12878RxraPcr1xRawRep2.bigWig

Supplementary file Size Download File type/resource
GSM803341_hg19_wgEncodeHaibTfbsGm12878RxraPcr1xPkRep1.broadPeak.gz 81.2 Kb (ftp)(http) BROADPEAK
GSM803341_hg19_wgEncodeHaibTfbsGm12878RxraPcr1xPkRep2.broadPeak.gz 17.7 Kb (ftp)(http) BROADPEAK
GSM803341_hg19_wgEncodeHaibTfbsGm12878RxraPcr1xRawRep1.bigWig 26.3 Mb (ftp)(http) BIGWIG
GSM803341_hg19_wgEncodeHaibTfbsGm12878RxraPcr1xRawRep2.bigWig 17.6 Mb (ftp)(http) BIGWIG
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap