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PAZAR specifications


Unique identifier OMICS_00540
Restrictions to use None
Maintained No

PAZAR citations


PAX6 MiniPromoters drive restricted expression from rAAV in the adult mouse retina

PMCID: 4980111
PMID: 27556059
DOI: 10.1038/mtm.2016.51

[…] ature and database assessment of PAX6, and created entries for the human and mouse genes in the Transcription Factor Encyclopedia (, and deposited regulatory data in PAZAR ( Later we developed a computational approach to predict RRs within the highly-interactive regulatory neighborhood at PAX6. In brief, regulatory potential was computed using thre […]


Transcriptome Alterations In X Irradiated Human Gingiva Fibroblasts

Health Phys
PMCID: 4936435
PMID: 27356049
DOI: 10.1097/HP.0000000000000419

[…] he EnsMart62Plus annotation for humans. The EnsMart62Plus comprises annotation from KEGG (), WikiPathways (), transcription factor-target relationships from the Amadeus Metazoan compendium () and the PAZAR transcription factor and regulatory sequence database (), and microRNA target sets as compiled in AltAnalyze (). The complete list of all detected genes served as background for the ORA. Gene sy […]


A Study into the Evolutionary Divergence of the Core Promoter Elements of PRPF31 and TFPT

PMCID: 4341892
PMID: 25729402
DOI: 10.4172/1747-0862.1000067

[…] Evolutionary conservation of regions was analyzed using ECR browser in NCBI DCODE software suite using default software settings for each program [].PAZAR transcription factor work space was used to find TFBS for PRPF31 and TFPT promoters in human and monkey and bidirectional promoters of dog and mouse []. Transfac, Jaspar and Oreganno vertebrate […]


Identification of cis regulatory sequence variations in individual genome sequences

Genome Med
PMCID: 3239227
PMID: 21989199
DOI: 10.1186/gm281

[…] ement. We selected genome annotations from four tracks available on the UCSC Genome Browser: (i) distance from a TSS (topology) - RefSeq gene track; (ii) two databases for literature- derived TFBSs - PAZAR and ORegAnno tracks; (iii) mammalian conservation - PhyloP track; and (iv) known sequence variants - dbSNP track. The UCSC Genome Browser provides instructions for researchers wanting to add the […]


Exploring pathway interactions in insulin resistant mouse liver

BMC Syst Biol
PMCID: 3169508
PMID: 21843341
DOI: 10.1186/1752-0509-5-127

[…] scriptional regulation, but unfortunately our interaction network contains relatively few transcription factor targets and we were unable to find a resource to increase this number in addition to the PAZAR database [] used in this study. Despite this shortcoming, we were still able to show that it allows finding several relevant pathway interactions that help focus follow-up experiments.Although i […]


Global mapping of binding sites for Nrf2 identifies novel targets in cell survival response through ChIP Seq profiling and network analysis

Nucleic Acids Res
PMCID: 2943601
PMID: 20460467
DOI: 10.1093/nar/gkq212

[…] lear and mitochondrial genomes.To confirm the quality of the results, we assessed the recovery of bona fide Nrf2-binding sites in the human, mouse or rat genomes compiled from the literature into the PAZAR regulatory annotation repository (). Ten of the corresponding mouse regions overlap one of the ChIP-Seq peaks and while four do not overlap a peak, a peak can be found in proximity (, Supplement […]


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