Culminating Workshop at Lake Arrowhead

June 6 - 11, 2004

UCLA Conference Center At Lake Arrowhead

Evening Session

Morning Session

George Michailidis (University of Michigan)

"The Application of Rule-Based Methods to Class Prediction Problems in Genomics and Proteomics"

Stuart Dubin (Cedars-Sinai Medical Center / UCLA)

"Déjà Vu All Over Again: a Clinical Perspective"

Joint with NANO

Hans Frauenfelder (Los Alamos National Laboratory)

"The energy landscape and fluctuations of proteins. (Part I)"

Afternoon Session

Joint with NANO

Dov Bai (Cornell University)

"Multiscale Computation of a Polypeptide Backbone Model"

Andres Jaramillo-Botero (Pontificia Universidad Javeriana)

"Design Criteria for 3 Degree-of-Freedom Positional Nanomanipulator based on Constraint Molecular Dynamics Model"

Evening Session

Morning Session

Joint with NANO

Hans Frauenfelder (Los Alamos National Laboratory)

"The energy landscape and fluctuations of proteins. (Part II)"

Rima Gandlin (Weizmann Institute of Science)

"Modeling the Logic of Biological Systems"

Lisa Wesoloski (UCLA)

"Quantum Tunneling Theory Applied to Scanning Tunneling Microscopy"

Afternoon Session

Jeungphill Hanne (UCLA)

"Force Dependence of the Transition Rate of Biological Two State Systems"

Shipra Mehta (University of Southern California)

"Methods in Motif Detection: An Overview and Scope for Improvement"

Debojyoti Dutta (University of Southern California)

"Fast Shape Matching"

Evening Session

Morning Session

Catherine Grasso (Cornell University)

"A Profile-Profile Scoring Method for Partial Order Multiple Sequence Alignment"

Lan Zhu (Cornell University)

"A Composite Likelihood Ratio Test for Detecting Natural Selection Using Site Frequency Data"

Ryan Hernandez (Cornell University)

"A Mathematical Model of Glucose Regulation with Applications to Diabetes"

Carlos Bustamante (Cornell University)

"Comparative Population Genomics of Humans and Chimpanzees"

Afternoon Session

Discussion Session 4:30 - 6:00: Best Proteomics paper published in the last year

Roland Krause (Max Planck Institute for Infection Biology)

"Ghaemmaghami et al, Global analysis of protein expression in yeast, Nature 425 (2003) 737-741"
Presentation (PDF File)

Michael Thompson (UCLA)

"Yook et al, Functional and topological characterization of protein interaction networks, Proteomics 4 (2004) 928-942"
Presentation (PDF File)

Alexei Podtelezhnikov (Keck Graduate Institute)

"Winther and Krogh, Teaching computers to fold proteins, http://arxiv.org/abs/cond-mat/0309497 (2003)"
Presentation (PDF File)

Catherine Grasso (Cornell University)

"Hilman et al, An unappreciated role for RNA surveillance, Genome Biology 5 (2004) R8.1-R8.16"
Presentation (PDF File)

Ryan Hernandez (Cornell University)

"van Haeften and Twickler, Insulin-like growth factors and pancreas beta cells, European Journal of Clinical Investigation 34 (2004) 249-255"
Presentation (PDF File)

Arun Ramani (University of Texas at Austin)

"Jansen et al, A Bayesian networks approach for predicting protein-protein interactions from genomic data, Science 302 (2003) 449-453"
Presentation (PDF File)

Yingying Huang (Thermo Electron)

"Elias et al, Intensity-based protein identification by machine learning from a library of tandem mass spectra, Nature Biotechnology 22 (2004) 214-219"
Presentation (PDF File)

Parag Mallick (UCLA)

"Diamandis, Analysis of serum proteomic patterns for early cancer diagnosis: drawing attention to potential problems, Journal of the National Cancer Institute 96 (2004) 353-356"
Presentation (PDF File)

Parag Mallick (UCLA)

"Ranish et al, The study of macromolecular complexes by quantitative proteomics, Nature Genetics 33 (2003) 349-355"
Presentation (PDF File)

Evening Session

Morning Session

Zheng Fu (University of California, Riverside)

"Assignment of Orthologous Genes via Genome Rearrangement"

Elisa Mori (Università di Siena)

"An algorithm for de novo peptide sequencing"

Alexei Podtelezhnikov (Keck Graduate Institute)

"Molecular dynamics, Brownian dynamics, and Monte Carlo methods: Pros and Cons"

David Wild (Keck Graduate Institute)

"deciphering protein complexes"

Afternoon Session

Yingying Huang (Univ. of Arizona) / George Tseng (Univ. of Pittsburg) / Robert Yuan (UCLA)

"Clustering peptide gas-phase dissociation pattern from tandem mass spectra"

Yunhu Wan (University of Southern California)

"Peptide Identification Method in Database Searching for Mass Spectrometry"

Hyunju Lee (University of Southern California)

"Assessment of the Reliability of Protein-Protein Interactions using Protein Localization Data"

Evening Session

Morning Session

Roland Krause (Max Planck Institute for Infection Biology)

"Modular decomposition of protein-protein interaction networks"

Afternoon Session