Wilkerson, M.D., Ru, Y., and Brendel, V.P. (2009) Common introns within orthologous genes: software and application to plants Briefings in Bioinformatics, 10(6), 631-644. [abstract] [PDF]
PlantGDB News:Community-annotated maize gene models (see an example at ZmGDB) are now displayed at both MaizeGDB and maizesequence.org, by means of Distributed Annotation Service (DAS) (November 21, 2009).
Brachypodium distachyon browser: BdGDB, a genome browser for the model grass species Brachypodium distachyon, is now available, based on the JGI v1.0 8x genome assembly. The assembly displayed comprises 271.15 Mb arranged in 5 pseudochromosomes. Display includes gene models, splice-aligned EST, cDNA, PUT assembly and Arabidopsis and rice predicted proteins (October 30, 2009).
My classroom teaching currently is limited to the BCB 568 Bioinformatics II. Advanced Genome Informatics and the BCBio 211X Introduction to Bioinformatics and Computational Biology courses, offered each Spring semester. The graduate students in our research group generally participate in either the Bioinformatics and Computational Biology or Interdepartmental Genetics graduate programs. We accept a small number of students each Spring semester from each program to do rotation projects with us, and we typically offer undergraduate research experiences throughout the year and in special programs in the summer.
Students interested in these latter two opportunities should contact us by email. Potential graduate students interested in the Bioinformatics and Computational Biology or Interdepartmental Geneticsgraduate programs will find application information on the program web pages.
My teaching philosophy emphasizes integration of research and textbook learning and interdisciplinary study.
I am currently also serving on the International Faculty of the International Graduate School in Bioinformatics and Genome Research conducted at the Center of Biotechnology, University of Bielefeld, Germany.