CMP244 Text and reserve list
The texts are R. Durbin and S. Eddy and A. Krogh and
G. Mitchison's
Biological Sequence Analysis: Probabilistic Models of Proteins and
Nucleic Acids. from Cambridge University Press,
and D. Graur and W.H. Li's Fundamentals of Molecular Evolution.
The first is a
tutorial introduction to the use of hidden Markov models
and other probabilistic models for sequence
analysis problems in computational molecular biology
The same text is used for CMPS 243. (Be sure to look at the errata page.) We
will be covering the material that wasn't covered in that course.
Both books should be at the bookstore.
In addition to this text, a number of books will be put
on reserve in the Science Library, from which there may be required
reading assignments. These are also available to students for
further research into the topic they choose for their project.
The following will be on reserve in the Science Library:
- R. Durbin and S. Eddy and A. Krogh and G. Mitchison.
-
Biological Sequence Analysis: Probabilistic Models of Proteins and
Nucleic Acids.
UCSC Science QP620.B576.
- D. Graur and W.H. Li.
- Fundamentals of Molecular Evolution.
-
Cynthia Gibas and Per Jambeck.
- Developing Bioinformatics Computer Skills
O'Reilly and Associates, April 2001
(Errata page: http://www.oreilly.com/catalog/bioskills/errata/).
- Waterman, Michael S.
- Introduction to computational biology : maps, sequences and genomes.
UCSC Science QH438.4.M33.
- Schulze-Kremer, Steffen.
- Molecular bioinformatics : algorithms and applications
UCSC Science QH506 .S346.
- D. Gusfield.
- Algorithms on strings, trees, and sequences : computer
science and computational biology. 1997.
UCSC Science QA76.9.A43 G87.
- Andreas Baxevanis and B.F.Francis Ouellette, Eds.
- Bioinformatics : A Practical Guide to the Analysis of
Genes and Proteins.
UCSC Science QP620.B566.
- Pierre Baldi and Soren Brunak
- Bioinformatics : The Machine Learning Approach (Adaptive
Computation and Machine Learning). 1998.
UCSC Science QH506 .B35.
- Steven L. Salzberg,
David B. Searls, Simon Kasif, Eds.
- Computational methods in molecular biology.
1998.
UCSC Science QH506 .C7375.
- Douglas W. Smith, editor.
- Biocomputing : informatics and genome projects.
UCSC Science QH447.B56.
- Campbell, Neil.
- Biology. 5th Edition. 1999.
UCSC Science QH308.2 .C34.
- Harvey Lodish et al..
- Molecular cell biology,
3rd ed., 1995 (or latest edition).
UCSC Science QH581.2 .D37.
- Lewin, Benjamin.
- Genes VII. 2000.
UCSC Science QH430.L487.
- D. Clark and L. Russell.
- Molecular Biology made simple and fun.
1997.
UCSC Science QH506 .C535.
- Gonick and Wheelis.
- Cartoon Guide to Genetics.
1991.
UCSC Science QH436.G66.
- Tom Strachan, Andrew Read.
- Human Molecular Genetics 2. UCSC Science QH442.S775.
- Matt Ridley.
- Genome: the autobiography of a species in 23 chapters.
UCSC McHenry QH431.R475.
- Sheldon Ross.
- A first course in Probability
5th Edition.
UCSC Science QA273.R83.
- John Rice
- Mathematical Statistics and Data Analysis
UCSC Science QA276.12 .R53 1995 (second edition)
- Andrew Gelman et al.
- Bayesian data analysis
UCSC Science QA279.5 .B39
The following are conference proceedings that may be of use:
- Lawrence Hunter, Teri E. Klein, editors.
- Pacific Symposium on Biocomputing, 2000
UCSC Science QH323.5 .P33.
(See PSB proceedings online.)
-
Various editors.
-
Proceedings of the International Conference
on Intelligent Systems for Molecular Biology AAAI Press,
UCSC Science QH506 .I487)
(Recent ones available as specia issues of the journal Bioinformatics
which is available on-line at UCSC, see
UCSC electronic
journals.)
-
Various editors.
-
Proceedings of the
International Conference on Computational Molecular Biology
ACM Press.
UCSC Science QH506.I45.
(See
RECOMB proceedings online)