This special focus is jointly sponsored by the Center for Discrete Mathematics and Theoretical Computer Science (DIMACS), the Biological, Mathematical, and Physical Sciences Interfaces Institute for Quantitative Biology (BioMaPS), and the Rutgers Center for Molecular Biophysics and Biophysical Chemistry (MB Center).
Monday, June 20, 2005
8:00 - 8:45 Breakfast and Registration
8:45 - 9:00 Welcoming Remarks
Brenda Latka, DIMACS Associate Director
Laxmi Parida, Workshop Organizer
Morning chair: Gyan Bhanot
9:00 - 10:00 Chains of collective reasoning in biological publications
Andrey Rzhetsky, Columbia University
10:00 - 10:30 False Negatives and False Positives in HTS
Vlado Dancik, Millennium Pharmaceuticals
10:30 - 11:00 Tea/Coffee Break
11:00 - 11:30 The structures of about eight thousand sandwich proteins
can be described by few supermotifs
A.E. Kister, Univ of Medicine and Dentistry of New Jersey & Rutgers University
11:30 - 12:00 Detecting synchronization between the signals from multivariate
and univariate biological data
Mikhail Prokhorov, Saratov Inst of RadioEngineering & Electronics
12:00 - 1:30 Lunch
Afternoon chair: Steffen Heber
1:30 - 2:30 Statistical and algorithmic approaches to genome rearrangements
based on sequence data
David Sankoff, University of Ottawa
2:30 - 3:00 Common Intervals of Graphs
Steffen Heber, N C State University
3:00 - 3:30 Tea/Coffee Break
3:30 - 4:00 Multiple alignment using hydrophobic clusters:
a tool to identify and align distantly related proteins
J. Baussand, Université Pierre et Marie Curie
4:00 - 4:30 Locating conserved genes in whole genome scale
Prudence Wong, University of Liverpool
4:30 - 5:00 Gene expression patterns of breast cancer phenotype revealed
by molecular profiling
Gyan Bhanot, IBM T J Watson Research
5:00 - 5:30 Inferring Phylogeny using Permutation Patterns in Genomic Data
Md Enamul Karim, University of Louisiana
Tuesday, June 21, 2005
8:15 - 9:00 Breakfast and Registration
Morning Chair: Alberto Apostolico
9:00 - 10:00 Mining and Pattern Analysis in Large Data Sets for
Biological Information
David Mount, University of Arizona
10:00 - 10:30 Logical Analysis of Diffuse Large B-Cell Lymphomas
D. Weissmann, Robert Wood Johnson University Hospital
10:30 - 11:00 Tea/Coffee Break
11:00 - 11:30 Deciphering the Information Encoded in RNA Viral Genomes
Christine Heitsch, University of Wisconsin
11:30 - 12:00 Robust diagnosis of non-Hodgkin lymphoma phenotypes validated on gene
expression data from different laboratories
Gabriela Alexe, Institute for Advanced Study, Princeton
12:00 - 1:30 Lunch
Afternoon chair: Vlado Dancik
1:30 - 2:30 Discovering key modulators of genetic activity by network reverse engineering
Andrea Califano, Columbia University
2:30 - 3:00 ActiveNetworks: A Framework for Cross-Condition Analysis of Functional
Genomic Data
T M Murali, Virginia Polytechnic Institute
3:00 - 3:30 Tea/Coffee Break
3:30 - 4:00 Efficient probe selection in microarray design
Cindy Li, University of Liverpool
4:00 - 4:30 TriCluster: Mining Coherent Clusters in 3D Microarray Data
Mohammed Zaki, Rensselaer Polytechnic Institute
4:30 - 5:00 A method for aligning RNA secondary structures
and its application to RNA motif detection
Jason Wang, NJIT
5:00 - 5:30 Animated Terrain Evolution for Visual Analysis
of Protein Folding Trajectory
Kush Kapila, Matrox Imaging
7:00 Workshop Banquet at the Holiday Inn
Banquet speaker: Ajay Royyuru, IBM T J Watson Research
The Genographic Project
Wednesday, June 22, 2005
8:15 - 9:00 Breakfast and Registration
Morning chair: Mohammed Zaki
9:00 - 10:00 Comparative genomics: The lion, the leopard, the wolf or the boar, Why not more?
Bud Mishra, New York University
10:00 - 10:30 Analysis of High Bandwidth Molecular Dynamics Results
from the Blue Gene Project
Frank Suits, IBM T J Watson Research
10:30 - 11:00 Tea/Coffee Break
11:00 - 11:30 Novel Computational and Integrative Tools for the Analysis
of Gene Co-Expression Data
Michael A. Langston, Univ of Tennessee & Oak Ridge National Lab
11:30 - 12:00 An Algorithm for Exploring Patterns in Clinical Genomic Data
Richard Mushlin, IBM T J Watson Research
12:00 - 1:30 Lunch
Afternoon chair: Leszek Gasieniec
1:30 - 2:30 The Unbearable Monotony of Surprises
Alberto Apostolico, Purdue University & University of Padova
2:30 - 3:00 Linear Manifold Embeddings of Pattern Clusters
Rave Harpaz, City University of New York
3:00 - 3:30 Tea/Coffee Break
3:30 - 4:00 Efficient Algorithms for Motif Search
Sudha Balla, University of Connecticut
4:00 - 4:30 Varun: Extraction of Over-Represented Extensible Patterns
Matteo Comin, University of Padova
4:30 - 5:00 Predicting Novel Genes and Interactions using the Scale Free
Behavior of Genetic Networks
Ugur Sezerman, Sabanci University
Previous: Participation
Next: Registration
Workshop Index
DIMACS Homepage