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COURSE ANNOUNCEMENT SPRING 2005 BIO/MAT 394 Introduction to Computational Molecular Biology Instructors: Andrzej Czygrinow Dept of Mathematics & Statistics PSA 544 965-2352 [email protected] Time: 1:40 -2:55 Monday – Wednesday Location: LSE 236 Credits: 3 Martin F. Wojciechowski School of Life Sciences LSE 711 727-7767 [email protected] Topics: With the availability of gene/genomic expression and structural data, computer science and mathematics have profoundly changed the science of modern biology. This course will provide students with an introduction to a variety of basic mathematical and computational tools used in analysis of molecular biology problems. The mathematical topics discussed in lectures will consist of discrete mathematics and probability. However, the emphasis of the course is on algorithmic techniques applied to problems motivated by molecular biology and genetics. In particular, the course will focus on sequence alignment algorithms and Hidden Markov Models, followed by computational approaches to genetic and physical mapping, DNA sequencing, and phylogenetic reconstruction. In addition to lectures where theory is developed, computer lab sessions are incorporated to implement some of the main algorithms and introduce a variety of commonly available software packages for problem solving. For example, NCBI databases, tools such as BLAST, and software packages for tree reconstruction will be covered. Prerequisites: BIO 188 and MAT 210 (or MAT 251), MAT 243 suggested Recommended Texts: Biological Sequence Analysis: Probabilistic Models of Proteins and Nucleic Acids, by Richard Durbin, S. Eddy, A. Krogh, G. Mitchison, R. Durbin, Cambridge University Press, reprint edition (1999), ISBN: 0521629713. Algorithms on Strings, Trees and Sequences: Computer Science and Computational Biology, by D. Gusfield, Cambridge University Press (1997), ISBN: 0521585198. Readings & course notes posted on website - http://desdemona.la.asu.edu/~andrzej/351/notes.pdf Additional Information: Capacity: 24 Course Enrollment: preference given to MARC and pre-MARC undergraduate students) Course Fee required: $50 (for use of CBS Program computer room, LSE 236) Meets the general studies CS requirement. This course will satisfy the requirement of MAT 351 for students in the MBB program.
