Being able to map the genetic basis of phenotypic differences between individuals is an essential task in Natural Variation research. Mapping requires distinct markers between genotypes. Several studies aim at describing the sequence variation within a species. One common outcome of those studies usually is the publication of multiple sequence alignments from multiple loci from several individuals, ecotypes or strains, which of course contain information about polymorphisms between them. We set out to make this polymorphism information readily accessible. The MSQT-application can be easily installed and will run on any BSD, Linux or Mac OS X platform. You are welcome to try your local copy with your own datasets.
MSQT is a project of Norman Warthmann, Joffrey Fitz and Detlef Weigel.
Concept, database design and proof of concept by Norman Warthmann.
Realization, application design and programming by Joffrey Fitz.
How to cite
If you find this information useful then please cite:
Norman Warthmann, Joffrey Fitz and Detlef Weigel.
MSQT for choosing SNP assays from multiple DNA alignments.
Bioinformatics 2007; doi: 10.1093/bioinformatics/btm428
Many thanks goes to Stephan Ossowski and Richard Clark, providing ideas, code and support.
THERE IS NO WARRANTY FOR THE PROGRAM, TO THE EXTENT PERMITTED BY APPLICABLE LAW. EXCEPT WHEN OTHERWISE STATED IN WRITING THE COPYRIGHT HOLDERS AND/OR OTHER PARTIES PROVIDE THE PROGRAM "AS IS" WITHOUT WARRANTY OF ANY KIND, EITHER EXPRESSED OR IMPLIED, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE. THE ENTIRE RISK AS TO THE QUALITY AND PERFORMANCE OF THE PROGRAM IS WITH YOU. SHOULD THE PROGRAM PROVE DEFECTIVE, YOU ASSUME THE COST OF ALL NECESSARY SERVICING, REPAIR OR CORRECTION.
This is MSQT Version 0.7.1 (Tue Jun 12 2007)
This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2, or (at your option) any later version.