New Course for Fall 2003
BIO 384K.20. Recent Advances in Computational Biology
Unique # 50053
Monday 9-11 ESB 103
Wed 9-10 ESB 103 (if needed)
Instructor: David Cannatella
This course is not a discussion course (as the grad catalog suggests) but is a lecture/lab focusing on acquiring bioinformatics computer skills, including introductory programming in Perl. The course assumes some basic knowledge of molecular biology and phylogenetics. Graduate standing required. The course will fulfill one of the course requirements for IGERT fellows (according to David Hillis). There will be a series of assignments (homework) but no exams. The book that we will use for Perl is Beginning Perl for Bioinformatics, by James Tisdall (ISBN 0596000804). You can get it for about 25% off of the $40.00 list price on Amazon.com. There also will be readings from the primary literature.
Topics to be covered include:
- UNIX Filesystem
- Basic HTML and websites
- Pairwise alignments and alignment algorithms
- Multiple sequence alignments and CLUSTAL
- BLAST searching
- GenBank, Pubmed, and other NCBI databases
- Perl Programming
- Regular expressions and pattern matching
- Relational databases
The course will be biased toward the Macintosh applications and operating system (including OS X), and nucleotide sequence analysis, rather than Windows and protein databases. If you've already taken
Systematics with me, this course will build on some of that
information. If you intend to enroll, please drop me an email at catfish@mail.utexas.edu