Email: ojvind@cs.ucsd.edu
Cell phone: (858) 699-1952
FAX: (858) 534-7029
Office: University Center 402

Mailing address:
Department of Computer Science and Engineering
University of California, San Diego
APM 3132
La Jolla, CA 92093-0114
USA

Brief biography:
I have an M.S. in Engineering Physics and a Ph.D. in Computer Science, both from the Royal Institute of Technology in Stockholm, Sweden. I began my bioinformatics career as a postdoc with Jens Lagergren at the Stockholm Bioinformatics Center, and then got a postdoctoral scholarship from the Knut and Alice Wallenberg foundation, enabling me to go to UCSD.

Research interests:
My research focuses on prediction of gene regulatory modules. These are short regions of DNA to which certain proteins can bind, which then control the activity of a nearby gene. This makes regulatory modules central to the life cycle and function of cells, and understanding them is important for our improved understanding of cellular processes. Locating regulatory modules experimentally is laborious however. Theoretical prediction of putative regulatory modules can therefore be very valuable, as experimental work can then be concentrated on these putative regions. I have developed an algorithm for locating putative regulatory regions in a genome depending only on binding models for the proteins of interest [1].

Bioinformatics papers:

1. Ö. Johansson, W. Alkema, W. W. Wasserman, and J. Lagergren. Identification of functional clusters of transcription factor binding motifs in genome sequences: the MSCAN algorithm. Bioinformatics, 19(Suppl. 1):i169-76, 2003.
[View Abstract - PubMed 12855453]

2. Wynand B.L. Alkema, Öjvind Johansson, Jens Lagergren, and Wyeth W. Wasserman. MSCAN: identification of functional clusters of transcription factor binding sites. Nucleic Acids Res, 32(Web Server issue):W195-8, 2004.
[View Abstract - PubMed 15215379]