TY - JOUR
T1 - MamPol
T2 - A database of nucleotide polymorphism in the Mammalia class
AU - Egea, Raquel
AU - Casillas, Sònia
AU - Fernández, Enol
AU - Senar, Miquel Àngel
AU - Barbadilla, Antonio
N1 - Funding Information:
The authors would like to thank Natalia Petit, Elisa Heymann and two anonymous referees for valuable discussions, and David Owen for his critical reading of this manuscript. Computational resources used in this work were kindly provided by the Oliba Project of the Universitat Autonoma de Barcelona. R.E. was supported by the Departament d’Universitats, Recerca i Societat de la Informació de la Generalitat de Catalunya i el Fons Social Europeu (Grant 2005FI 00328). S.C. was supported by the Ministerio de Ciencia y Tecnología (Grant BES-2003-0416). This work was supported by the Ministerio de Educación y Ciencia (Grants BFU2006-08640/BMC and TIN 2004-03388). Funding to pay the Open Access publication charges for this article was provided by the Ministerio de Educación y Ciencia (Grants BFU2006-08640/BMC awarded to Antonio Barbadilla and TIN 2004-03388 awarded to Miquel Ángel Senar).
PY - 2007/1
Y1 - 2007/1
N2 - Multi-locus and multi-species nucleotide diversity studies would benefit enormously from a public database encompassing high-quality haplotypic sequences with their associated genetic diversity measures. MamPol, 'Mammalia Polymorphism Database', is a website containing all the well-annotated polymorphic sequences available in GenBank for the Mammalia class grouped by name of organism and gene. Diversity measures of single nucleotide polymorphisms are provided for each set of haplotypic homologous sequences, including polymorphism at synonymous and non-synonymous sites, linkage disequilibrium and codon bias. Data gathering, calculation of diversity measures and daily updates are automatically performed using PDA software. The MamPol website includes several interfaces for browsing the contents of the database and making customizable comparative searches of different species or taxonomic groups. It also contains a set of tools for simple re-analysis of the available data and a statistics section that is updated daily and summarizes the contents of the database. MamPol is available at http://mampol.uab.es/ and can be downloaded via FTP.
AB - Multi-locus and multi-species nucleotide diversity studies would benefit enormously from a public database encompassing high-quality haplotypic sequences with their associated genetic diversity measures. MamPol, 'Mammalia Polymorphism Database', is a website containing all the well-annotated polymorphic sequences available in GenBank for the Mammalia class grouped by name of organism and gene. Diversity measures of single nucleotide polymorphisms are provided for each set of haplotypic homologous sequences, including polymorphism at synonymous and non-synonymous sites, linkage disequilibrium and codon bias. Data gathering, calculation of diversity measures and daily updates are automatically performed using PDA software. The MamPol website includes several interfaces for browsing the contents of the database and making customizable comparative searches of different species or taxonomic groups. It also contains a set of tools for simple re-analysis of the available data and a statistics section that is updated daily and summarizes the contents of the database. MamPol is available at http://mampol.uab.es/ and can be downloaded via FTP.
UR - https://www.scopus.com/pages/publications/33846090992
U2 - 10.1093/nar/gkl833
DO - 10.1093/nar/gkl833
M3 - Article
C2 - 17142236
SN - 0305-1048
VL - 35
SP - D624-D629
JO - Nucleic acids research
JF - Nucleic acids research
IS - SUPPL. 1
ER -