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The SNPforID browser: an online tool for query and display of frequency data from the SNPforID project

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Abstract

The SNPforID browser is a web-based tool for the query and visualization of the SNP allele frequency data generated by the SNPforID consortium (http://www.snpforid.org/). From this project, validated panels of single nucleotide polymorphisms (SNPs) for a variety of forensic applications have been generated with the browser concentrating on the single-tube identification SNP set comprising 52 markers. A web interface allows the visitor to review the allele frequencies of the studied markers from all the available populations used by SNPforID to validate global SNP variability. The interface has been designed to offer the useful facility of combining populations into appropriate geographic groups for visual comparison of populations individually or amongst user-defined groupings and with equivalent HapMap data.

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Acknowledgements

The authors wish to thank Albert Vernon Smith and Lalitha Krishnan of the HapMap Project for their guidance in helping us link the browser to the HapMap SNP dataset, and Antonio Salas for his help with the genotyping quality assessment. We also would like to thank the Centro de Supercomputación de Galicia (CESGA) for their web hosting service and technical support. Funding from Xunta de Galicia: PGIDTIT06PXIB228195PR and Ministerio de Educación y Ciencia: proyecto BIO2006-06178 given to ML partially supported this work.

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Authors and Affiliations

  1. Spanish National Genotyping Center (CeGen) and Genomic Medicine Group, CIBERER, University of Santiago de Compostela, Santiago de Compostela, Spain

    Jorge Amigo, Christopher Phillips & Ángel Carracedo

  2. Insitute of Legal Medicine, Genomic Medicine Group, University of Santiago de Compostela, Santiago de Compostela, Spain

    Maviky Lareu & Ángel Carracedo

Authors
  1. Jorge Amigo
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  2. Christopher Phillips
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  3. Maviky Lareu
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  4. Ángel Carracedo
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Corresponding author

Correspondence to Jorge Amigo.

Additional information

Accessibility: web access to this tool is granted at http://spsmart.cesga.es/snpforid.php

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Amigo, J., Phillips, C., Lareu, M. et al. The SNPforID browser: an online tool for query and display of frequency data from the SNPforID project. Int J Legal Med 122, 435–440 (2008). https://doi.org/10.1007/s00414-008-0233-7

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  • DOI: https://doi.org/10.1007/s00414-008-0233-7

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