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| Status |
Public on Sep 29, 2011 |
| Title |
HudsonAlpha_ChipSeq_GM12878_RXRA_PCR1x |
| Sample type |
SRA |
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| Source name |
GM12878
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| 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
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| Biomaterial provider |
Coriell; http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=GM12878
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| Treatment protocol |
None
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| Growth protocol |
GM12878_protocol.pdf
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| 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
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| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer |
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| Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeHaibTfbs
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| Submission date |
Sep 28, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
ENCODE DCC |
| E-mail(s) |
[email protected]
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| Organization name |
ENCODE DCC
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| Street address |
300 Pasteur Dr
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| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305-5120 |
| Country |
USA |
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| 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 |
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| 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 Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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