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RAVEN specifications

Information


Unique identifier OMICS_01932
Name RAVEN
Alternative name Regulatory analysis of Variation in ENhancers
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Malin C. Andersen <>

Publication for Regulatory analysis of Variation in ENhancers

RAVEN in publications

 (3)
PMCID: 5282577
PMID: 28139719
DOI: 10.1038/srep41636

[…] family-based cohort., we used the tfsearch program ( http://www.cbrs.jp/research.db/tfsearch.html) to predict the potential transcription factor binding sites for il22. we also used the raven (regulatory analysis of variation in enhancers) system ( http://www.cisreg.ca) to detect and characterize regulatory sequence variation. this approach identifies genetic variants likely to influence […]

PMCID: 2879626
PMID: 19052543
DOI: 10.1038/npp.2008.206

[…] (), supporting that this snp3 locus may play a role in substance dependence. snp3 per se could alter rna secondary structure (idt scitools: http://www.idtdna.com/scitools/scitools.aspx). raven [regulatory analysis of variation in enhancers; ()] predicts that snp3 is located within a conserved region (phastcon score>0.4) and may be a binding site for transcription factors and thereby […]

PMCID: 1865061
PMID: 17267408
DOI: 10.1093/nar/gkl1152

[…] for each snp. a two-tailed student's t-test was used to calculate the significance of the difference in the allelic ratios for the snps in genomic dna and cdna (). figure 1., the bioinformatics tool regulatory analysis of variation in enhancers (raven) (m. andersen, b. lenhard et al., in preparation) was used for the identification of potential rsnps in the promoter regions of the genes […]


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RAVEN institution(s)
Department of Gene Technology, School of Biotechnology, AlbaNova University Center, Royal Institute of Technology (KTH), Stockholm, Sweden; Atherosclerosis Research Unit, Department of Medicine, Center for Molecular Medicine, Karolinska University Hospital—Solna, Stockholm, Sweden; Computational Biology Unit—Bergen Center for Computational Science and Sars Centre for Marine Molecular Biology, University of Bergen, HIB, Bergen, Norway; Program for Genomics and Bioinformatics, Department of Cell and Molecular Biology, Karolinska Institutet, Stockholm, Sweden; Ontario Cancer Institute, Princess Margaret Hospital, University of Toronto, Toronto, ON, Canada; Centre for Molecular Medicine and Therapeutics (CMMT), Child and Family Research Institute, Department of Medical Genetics, University of British Columbia, Vancouver, BC, Canada; Karolinska Biomics Center, Karolinska University Hospital, Stockholm, Sweden

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