PupaSuite: finding functional single nucleotide polymorphisms for large-scale genotyping purposes.

Lucia Conde, Juan Vaquerizas, Hernán Dopazo, Leonardo Arbiza, Joke Reumers, Frederic Rousseau, Joost Schymkowitz, Joaquin Dopazo

    Onderzoeksoutput: Articlepeer review

    188 Citaten (Scopus)

    Samenvatting

    We have developed a web tool, PupaSuite, for the selection of single nucleotide polymorphisms (SNPs) with potential phenotypic effect, specifically oriented to help in the design of large-scale genotyping projects. PupaSuite uses a collection of data on SNPs from heterogeneous sources and a large number of pre-calculated predictions to offer a flexible and intuitive interface for selecting an optimal set of SNPs. It improves the functionality of PupaSNP and PupasView programs and implements new facilities such as the analysis of user's data to derive haplotypes with functional information. A new estimator of putative effect of polymorphisms has been included that uses evolutionary information. Also SNPeffect database predictions have been included. The PupaSuite web interface is accessible through http://pupasuite.bioinfo.cipf.es and through http://www.pupasnp.org.
    Originele taal-2English
    Pagina's (van-tot)621-625
    Aantal pagina's5
    TijdschriftNucleic Acids Research
    Volume34
    StatusPublished - 1 jun 2006

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