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Sample GSM803430 Query DataSets for GSM803430
Status Public on Sep 29, 2011
Title HudsonAlpha_ChipSeq_H1-hESC_Egr-1_v041610.2
Sample type SRA
 
Source name H1-hESC
Organism Homo sapiens
Characteristics datatype: ChipSeq
datatype description: Chromatin IP Sequencing
antibody antibodydescription: Rabbit polyclonal, EGR-1 (588). Antibody Target: EGR1
antibody targetdescription: Egr-1, Egr-2, Egr-3 and Egr-4 are nuclear transcription factors belonging to the Egr C2H2-type zinc-finger protein family and containing three C2H2-type zinc fingers. As immediate early proteins, Egr transcription factors are rapidly induced by diverse extracellular stimuli. Egr proteins are subject to tight differential control through diverse mechanisms at several levels of regulation including transcriptional, translational and post-translational (including glyco- sylation, phosphorylation and redox) mechanisms and protein-protein inter- action. Egr-1 binds to the DNA sequence 5'-CGCCCCCGC-3' (EGR-site), there- by activating transcription of target genes whose products are required for mitogenisis and differentiation. Egr-2 binds specific DNA sites located in the promoter region of HoxA4. Egr-2 defects cause congenital hypomyelination neuropathy (also designated Charcot-Marie-tooth disease) and Dejerine- Sottas neuropathology (also designated hereditary motor and sensory neuro- pathy III. Egr-3 is involved in muscle spindle development and is expressed in T cells 20 minutes following activation. EGR-4 binds to the EGR consensus motif GCGTGGGCG, functions as a transcriptional repressor, and displays autoregulatory activities, downregulating its on gene promoter in a dose dependent manner.
antibody vendorname: Santa Cruz Biotechnology
antibody vendorid: sc-110
controlid: SL1398
labexpid: SL1885,SL1482
replicate: 1,2
softwareversion: MACS
antibody: Egr-1
antibody antibodydescription: Rabbit polyclonal, EGR-1 (588).
antibody targetdescription: Egr-1, Egr-2, Egr-3 and Egr-4 are nuclear transcription factors belonging to the Egr C2H2-type zinc-finger protein family and containing three C2H2-type zinc fingers. As immediate early proteins, Egr transcription factors are rapidly induced by diverse extracellular stimuli. Egr proteins are subject to tight differential control through diverse mechanisms at several levels of regulation including transcriptional, translational and post-translational (including glyco- sylation, phosphorylation and redox) mechanisms and protein-protein inter- action. Egr-1 binds to the DNA sequence 5'-CGCCCCCGC-3' (EGR-site), there- by activating transcription of target genes whose products are required for mitogenisis and differentiation. Egr-2 binds specific DNA sites located in the promoter region of HoxA4. Egr-2 defects cause congenital hypomyelination neuropathy (also designated Charcot-Marie-tooth disease) and Dejerine- Sottas neuropathology (also designated hereditary motor and sensory neuro- pathy III. Egr-3 is involved in muscle spindle development and is expressed in T cells 20 minutes following activation. EGR-4 binds to the EGR consensus motif GCGTGGGCG, functions as a transcriptional repressor, and displays autoregulatory activities, downregulating its on gene promoter in a dose dependent manner.
antibody vendorname: Santa Cruz Biotech
antibody vendorid: sc-110
treatment: None
treatment description: No special treatment or protocol applies
protocol: v041610.2
protocol description: 2x10^7 cells, fragmentation by probe-in sonicator, one 15-cycle round of PCR (Myers)
controlid: SL1398
labexpid: SL1482
replicate: 1
replicate description: tier 1
Biomaterial provider WiCell Research Institute
Treatment protocol None
Growth protocol missing
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 SRX100475
BioSample SAMN00738392
Named Annotation GSM803430_hg19_wgEncodeHaibTfbsH1hescEgr1V0416102RawRep1.bigWig
Named Annotation GSM803430_hg19_wgEncodeHaibTfbsH1hescEgr1V0416102RawRep2.bigWig

Supplementary file Size Download File type/resource
GSM803430_hg19_wgEncodeHaibTfbsH1hescEgr1V0416102PkRep1.broadPeak.gz 44.3 Kb (ftp)(http) BROADPEAK
GSM803430_hg19_wgEncodeHaibTfbsH1hescEgr1V0416102PkRep2.broadPeak.gz 134.0 Kb (ftp)(http) BROADPEAK
GSM803430_hg19_wgEncodeHaibTfbsH1hescEgr1V0416102RawRep1.bigWig 3.5 Mb (ftp)(http) BIGWIG
GSM803430_hg19_wgEncodeHaibTfbsH1hescEgr1V0416102RawRep2.bigWig 6.5 Mb (ftp)(http) BIGWIG
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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