Education:

PhD in Genetics. 1996. Wageningen Agricultural University
[ http://www.wau.nl/ ], The Netherlands.

M.S. in Chemistry. 1987. St Petersburg State University
[ http://www.spbu.ru/ ], Russia


Professional Experience:

2002 - current
Bioinformatics Specialist, UC Davis Genome Center. Development of strategies for large-scale data handling, data analysis, and presentation; managing multiple projects, training software developers, coordination of processes with lab scientists. Generation of genetic databases (in mySQL) [ http://cgpdb.ucdavis.edu/sitemap.html ]. Development of software applications for data analysis, visualization, and presentation. High-throughput EST/gene data processing and analysis. Development of tools to validate and visualize high-density genetic maps [ http://www.atgc.org/XLinkage/MadMapper/ ]. SFP (single feature polymorphism) and eQTL mapping using Affymetrix chip expression data for Arabidopsis RILs [ http://elp.ucdavis.edu/ ]. Design and analysis of custom Affymetrix genome chips.

2000 - 2002
Postdoctoral fellow, Department of Vegetable Crops, UC Davis. Studying the function of plant protein kinases and NBS-LRR genes (plant resistance to pathogens).
[ http://www.atgc.org/PhyloGrapher/Graph_Ath_NBS.html and http://niblrrs.ucdavis.edu/ ]

1996 - 2000
Postdoctoral fellow, UC Davis School of Medicine. 1. Chromosome structure in sperm cells. Analyzed chromosome telomere length in human populations and telomere-binding protein(s) in bovine.
[ http://www.atgc.org/Presentation/Slide04.html ]
2. Genetics of autoimmune diseases (lupus) in human. Performed data collection, processing, analysis, and genetic mapping.
[ The presentation of this project is available at http://www.atgc.org/Presentation/Genotyping_TDT.html (slides 5 to 36) ]

1991 - 1996
PhD student, Wageningen Agricultural University.
Plant-Microbe interaction, host specific interaction between Pea and rhizobia, fine genetic mapping of plant genes involved into symbiosis.
[ http://www.atgc.org/Presentation/Slide02.html ]

Selected Publications:

• Truco MJ, Antonise R, Lavelle D, Ochoa O, Kozik A, Witsenboer H, Fort SB, Jeuken MJ, Kesseli RV, Lindhout P, Michelmore RW, Peleman J.
  A high-density, integrated genetic linkage map of lettuce (Lactuca spp.).
  Theor Appl Genet. 2007 Sep 8; [Epub ahead of print] [ PubMed: 17828385 ]
  
  
• Krutovsky KV, Elsik CG, Matvienko M, Kozik A, Neale DB.
  Conserved Ortholog Sets in forest trees.
  Tree Genetics and Genomes. 2006 3:61-70 [ Abstract: www.springerlink.com
  
  
• Timms L, Jimenez R, Chase M, Lavelle D, McHale L, Kozik A, Zhao L, Heesacker A, Knapp S, Rieseberg L, Michelmore R, Kesseli R.
  Analyses of Synteny between Arabidopsis thaliana and Species in the Asteraceae Reveal a Complex Network of Small Syntenic Segments and Major Chromosomal Rearrangements.
  Genetics. 2006 Aug;173(4):2227-2235. Epub 2006 Jun 18. [ PubMed: 16783026 ]
  
  
• West MA, van Leeuwen H, Kozik A, Kliebenstein DJ, Doerge RW, St Clair DA, Michelmore RW.
  High-density haplotyping with microarray-based expression and single feature polymorphism markers in Arabidopsis.
  Genome Res. 2006 Jun;16(6):787-795. Epub 2006 May 15. [ PubMed: 16702412 ]
  
  
• Bernal AJ, Pan Q, Pollack J, Rose L, Kozik A, Willits N, Luo Y, Guittet M, Kochetkova E, Michelmore R.
  Functional analysis of the plant disease resistance gene Pto using DNA shuffling.
  J Biol Chem. 2005 280(24): 23073-23083. Epub 2005 Mar 23. [ PubMed: 15790558 ]
  
  
• 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. [ PubMed: 14519203 ]
  
  
• 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. [ PubMed: 12671079 ]
  
  
• Kozik A, Kochetkova E, Michelmore R.
  GenomePixelizer-a visualization program for comparative genomics within and between species.
  Bioinformatics 2002 18: 335-336. [ PubMed: 11847088 ]
  
  
• Kozik A, Bradbury EM, Zalensky AO.
  Identification and characterization of a bovine sperm protein that binds specifically to single-stranded telomeric deoxyribonucleic acid.
  Biol Reprod. 2000 Feb;62(2):340-346. [ PubMed: 10642571 ]
  
  
• Kozik A, Bradbury EM, Zalensky A.
  Increased telomere size in sperm cells of mammals with long terminal (TTAGGG)n arrays.
  Mol Reprod Dev. 1998 Sep;51(1): 98-104. [ PubMed: 9712323 ]
  
  
• Kozik A, Matvienko M, Scheres B, Paruvangada VG, Bisseling T, van Kammen A, Ellis TH, LaRue T, Weeden N.
  The pea early nodulin gene PsENOD7 maps in the region of linkage group I containing sym2 and leghaemoglobin.
  Plant Mol Biol. 1996 Apr;31(1): 149-156. [ PubMed: 8704148 ]