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Mathematics and Molecular Biology VII:
Modeling Across the Scales ó Atoms to Organisms |
January 5–10, 2002 |
Santa Fe, New Mexico |
Session Topics: |
Mathematics Tutorial, Biology Tutorial, Trainee Workshop, Modeling Molecules, Modeling Organisms, Bioinformatics, Single Molecules, Cellular Gene Expression, Mesoscale Modeling |
Speakers: |
Uri Alon, Bonnie Berger, Dorothy Buck, Chris Burge, Sandrine Dudoit, Richard Ebright, Julio Fernandez, Jeff Gelles, Mark Gerstein, Nancy Kopell, Chip Lawrence, Steve Levene, Simon Levin, Michael Levitt, Gene Meyers, David Mumford, Tamar Schlick, Klaus Schulten, Anirvan Sengupta, David Siegmund, Stephen Smith, Roland Stoughton, Nancy Sung, David Swigon, Susan Taylor, Wynn Walker, Michelle Wang, Sam Wilson, Wing Hung Wong, Sunney Xie |
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Workshop in Statistical Genetics and Computational Molecular
Biology |
December 16–18, 2001 |
A three-day workshop at the University of Washington for all interested students from the mathematical or computational sciences |
Workshop topics included: |
Analyzing genome sequences, protein structure prediction, molecular evolution, recombination breakpoints in aligned sequences, gene expression microarrays, genomics and infectious diseases, resequencing human genome segments, genome sharing in related individuals, motif identification in orthologous DNA sequences |
All by leading researchers, from the University of Washington and around the region |
Workshop homepage:
http://depts.washington.edu/statgen/Statgen/workshop.shtml |
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This introductory workshop is being offered in cooperation with: |
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Mathematics and Computational Biology of Genome Analysis |
June 24–26, 2000 |
Organizing Committee: |
Terry Speed (University of California, Berkeley) |
Kevin Atteson (MSRI, Berkeley) |
Sandrine Dudoit (MSRI, Berkeley) |
Richard Karp (MSRI, Berkeley) |
De Witt Sumners (Florida State University) |
This workshop features research-level presentations on topics from mathematics (broadly
interpreted) of current or potential relevance to genomics and proteomics. Techniques of cluster analysis are widely used in the analysis of gene expression data, ab initio protein folding, combinatorial chemistry, and in the classification of protein sequences. Markov chain Monte Carlo methods are used in simulation in physics and chemistry, in approximation of likelihoods and the calculation of Bayesian posterior means in probability and statistics, in combinatorial optimization (simulated annealing), and elsewhere. Pattern recognition methods (hidden Markov models, classification trees, networks of various kinds) play a very large role in genomics, and we plan to include expositions of recent research in this area. |
Workshop speakers include: |
Microarrays:
Pat Brown (Stanford University), Wing Hung Wong (University of California, Los Angeles), Amir Ben Dor (University of Washington) |
Sequence Analysis:
Chris Burge (Massachusetts Institute of Technology), Pavel Pevzner (University of Southern California), Steve Henikoff (Fred Hutchinson Cancer Center), Gene Myers (Celera) |
Genetics, Clustering:
Elizabeth Thompson (University of Washington), Nancy Cox (University of Chicago), Brian Ripley (Oxford University) |
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MSRI/PMMB Short Course |
Mathematical and Computational Challenges in Molecular and Cell Biology |
June 12–23, 2000 |
Organizing Committee: |
Nicholas R. Cozzarelli (University of California, Berkeley) |
Michael Levitt (Stanford University) |
Wilma Olson (Rutgers University) |
De Witt Sumners (Florida State University) |
This introductory short course is being offered in cooperation with MSRI. It will focus on research, training and career opportunities at the interface between mathematics/computation and molecular and cell biology. The goal of the short course is to encourage promising students from the mathematical sciences to apply their unique knowledge and talents to biological problems. The short course will feature examples of the feedback loop of interaction between mathematics and molecular and cell biology: mathematical models are built in response to unsolved problems and experimental results; the theory is converted into algorithms for machine computation; computations and theory are used to make predictions and analyze experimental data; results of this analysis are used to refine the theory and computation. The short course will include introductory lectures, laboratory and computer experiences, and discussion groups. |
Short course topics include: |
Probability and Statistics: Markov Chains, Bayesian Inference, Hidden Markov Models, Monte Carlo Simulation
Genomics: Genetic Mapping, DNA Sequencing, Microarray Analysis
Bioinformatics: Molecular Evolution, Database Searching
Nucleic Acid Geometry and Topology: Link, Twist and Writhe, Applications of Knot Theory to Enzyme Action
Nucleic Acid Structure and Function: Mathematical and Experimental Methods Used to Determine Macro Molecular Structure and Function, Interplay of Theory and Simulations with Experiments
Protein Structure and Function: Predicting Structure from Sequence, Relationship of Structure to Function
Physics of Single Molecules: Biophysics of Experiments on Single Molecules |
Short course speakers include: |
Orly Alter (Stanford University), David Baker (University of Washington), David Bensimon (Ecole Normale Superieure, Paris), Nick Cozzarelli (University of California, Berkeley), Philip Green (University of Washington), Richard Karp (University of California, Berkeley), Stephen Levene (University of Texas, Dallas), Michael Levitt (Stanford University), John Marko (University of Illinois Chicago), Lior Pachter (University of California, Berkeley), Wilma Olson (Rutgers University), Ram Samudrala (Stanford University), Eric Siggia (Rockefeller University), Terry Speed (University of California, Berkeley), Sylvia Spengler (Lawrence Berkeley National Laboratory), De Witt Sumners (Florida State University), Elizabeth Thompson (University of Washington), Ignacio Tinoco (University of California, Berkeley), Alexander Vologodskii (New York University), James Wang (Harvard University), James White (University of California, Los Angeles) |
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