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Research Summary
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Despite the fact that bioinformatics has been one of the fastest growing sectors in biology, there is still a lot of work to be done. Because of the absence of uniform data standards and a high level of corruption in current genome sequence data, particular problems in computational biology require individual and creative approaches to solve them.
Our bioinformatics group designed and developed new generation tools (computer programs) to study segmental duplications and syntenic regions of assembled genomes, as well as a new approach to SNP/InDel (Single Nucleotide Polymorphism/Insertion-Deletion) discovery and visualization of EST clustering.
You can access software developed by me and our bioinformatics group at:
GenomePixelizer (http://www.atgc.org/GenomePixelizer/)
GenoPix2D plotter (http://www.atgc.org/GenoPix_2D_Plotter/)
PhyloGrapher (http://www.atgc.org/PhyloGrapher/)
SNP/InDel discovery pipeline (http://cgpdb.ucdavis.edu/SNP_Discovery/)
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Publications
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(Selected)
A. Kozik, E. Kochetkova, and R. Michelmore
GenomePixelizer-a visualization program for comparative genomics within and between species.
Bioinformatics 2002 18: 335-336.
Meyers BC, Kozik A, Griego A, Kuang H, Michelmore RW.
Genome-wide analysis of NBS-LRR-encoding genes in Arabidopsis.
Plant Cell. 2003 Apr;15(4):809-834.
Cannon SB, Kozik A, Chan B, Michelmore R, Young ND.
DiagHunter and GenoPix2D: programs for genomic comparisons, large-scale homology discovery and visualization.
Genome Biol. 2003;4(10):R68.
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