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Nucleic Acids Research Advance Access originally published online on October 30, 2008
Nucleic Acids Research 2009 37(Database issue):D544-D549; doi:10.1093/nar/gkn874
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Nucleic Acids Research, 2009, Vol. 37, Database issue D544-D549
© 2008 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

This article appears in the following Nucleic Acids Research issue: Database issue [View the issue table of contents]

Articles

TcSNP: a database of genetic variation in Trypanosoma cruzi

Alejandro A. Ackermann, Santiago J. Carmona and Fernán Agüero*

Instituto de Investigaciones Biotecnológicas, Universidad de San Martín - CONICET, San Martín, 1650, Argentina

*To whom correspondence should be addressed. Tel: +54 11 4580 7255; Fax: +54 11 4752 9639; Email: fernan{at}unsam.edu.ar

Received August 15, 2008. Revised September 24, 2008. Accepted October 18, 2008.

The TcSNP database (http://snps.tcruzi.org) integrates information on genetic variation (polymorphisms and mutations) for different stocks, strains and isolates of Trypanosoma cruzi, the causative agent of Chagas disease. The database incorporates sequences (genes from the T. cruzi reference genome, mRNAs, ESTs and genomic sequences); multiple sequence alignments obtained from these sequences; and single-nucleotide polymorphisms and small indels identified by scanning these multiple sequence alignments. Information in TcSNP can be readily interrogated to arrive at gene sets, or SNP sets of interest based on a number of attributes. Sequence similarity searches using BLAST are also supported. This first release of TcSNP contains nearly 170 000 high-confidence candidate SNPs, derived from the analysis of annotated coding sequences. As new sequence data become available, TcSNP will incorporate these data, mapping new candidate SNPs onto the reference genome sequences.

The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors


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Nucleic Acids Research annual Database Issue and the NAR online Molecular Biology Database Collection in 2009
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