Presentation Slides (.pdf)
updated Feb. 12, 2010
| go directly to: [Friday - December 11] [Saturday - December 12] | |
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| Thursday – December 10, 2009 | |
| Keynote 1 | Polypharmacology: Drug Discovery in the Era of Genomics and Proteomics Philip E. Bourne, PhD Professor Skaggs School of Pharmacy & Pharmaceutical Sciences, UCSD Associate Director, RCSB Protein Data Bank Editor in Chief, PLoS Computational Biology |
| Oral Presentation 1 | Helping Biologists Understand their Data: An Update on the Hanalyzer System William A. Baumgartner, Jr., University of Colorado |
| Oral Presentation 2 | Thermodynamics-inspired ncRNA Search Jennifer Smith, Boise State University |
| Oral Presentation 3 | Algorithm to Improve Gene Consistency Across Bacterial Genomes Judith D. Cohn, Los Alamos National Laboratory |
| Oral Presentation 4 | A Genome-wide Analysis of Poised Promoters in Bacteria Marko Djordjevic, Arkansas State University and The Arkansas Bioscience Institute |
| Oral Presentation 5 | Structure-Based Prediction of DNA Binding Sites for Families of Transcription Factors Julia Ponomarenko, University of California, San Diego |
| Oral Presentation 6 | Genome-wide Discovery of Human Heart Enhancers Ivan Ovcharenko, NIH |
| Oral Presentation 7 | Development of Methods for Integrating Diverse Sources of Genome-Scale Data Daniel Dvorkin, University of Colorado, Denver |
| Oral Presentation 8 | Visualizing Genomic Sequences in 2D Josiah Seaman, Colorado State University |
| Oral Presentation 9 | Automated Inference of Molecular Mechanisms of Disease from Amino Acid Substitutions Biao Li, Indiana University |
| Oral Presentation 10 | A User Study of Attribute Visualization Tools and Their Role in Understanding Biological Networks Hande Kucuk, Eastern Michigan University |
| Oral Presentation 11 | NeuroIE: Extracting Neuroimaging Study Results from the Literature Yong Gao, Mass General Hospital/Harvard Medical School |
| Oral Presentation 12 | Analysis of a Local Huntingtin Protein Interaction Network Corey Powell, Buck Institute for Age Research |
| Oral Presentation 13 | In Silico Functional Profiling of Human Disease-Associated and Polymorphic Amino Acid Substitutions Vidhya G. Krishnan, Buck Institute for Age Research |
| Keynote 2 | Knowledge Acquisition for Knowledge Discovery in Cancer Metastasis Anna Divoli, PhD Postdoctoral Scholar Department of Medicine and Institute of Genomics and Systems Biology The University of Chicago |
| Oral Presentation 14 | Accelerating Candidate Gene Discovery through Ontological Indexing of Large Scale Data Repositories Simon Twigger, Medical College of Wisconsin |
| Oral Presentation 15 | Knowledge Network Approach: Pathways and Drugs Nikolai Daraselia, Ariadne |
| Oral Presentation 16 | Can We Accurately Determine the Fittest Genes in Nature Ramy K. Aziz, San Diego State University |
| Oral Presentation 17 | Assessing Models of Protein Interaction Network Evolution Todd A. Gibson, University of Colorado, Denver |
| Oral Presentation 18 | Gene and Genome Trees Conflict at Many Levels Leanne S. Haggerty, NUI Maynooth |
| Oral Presentation 19 | Protein-protein Interactions are Driven by Functional Evolution Yiqiang Zhao, Buck Institute for Age Research |
| Oral Presentation 20 | Evolutionary Study and Prediction of Protein-protein Interactions in Chromatin Modification Complexes Xuejian Xiong, Hospital for Sick Children |
| go directly to: [Thursday - December 10] [Saturday - December 12] | |
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| Friday – December 11, 2009 | |
| Keynote 3 | Spanning Scales - The Combination of Mathematics and High Performance Computing impacts Computational Biology Kirk E. Jordan, PhD, Emerging Solution Executive Computational Science Center IBM T.J. Watson Research Center |
| Oral Presentation 21 | An Individual Based Modelling Approach to Studying the Evolution of Mate Choice Strategy Robert Williamson, Rose-Hulman Institute of Technology |
| Oral Presentation 22 | MtHaplogroups: A Curated Web Resource for Mitochondrial Variation Michael V. Osier, Rochester Institute of Technology |
| Oral Presentation 23 | Posterior-Predictive Detection Of Molecular Co-Evolution Using Phylogenetically-Integrated Mutual Information A.P. Jason de Koning, University of Colorado, Denver |
| Oral Presentation 24 | Bioinformatics Characterization Of The Plasmodium Glutathione S-Transferase Emilee Colón, University of Puerto Rico |
| Oral Presentation 25 | Leveraging Existing Biological Knowledge in Genome Wide Association Studies Ronald Schuyler, University of Colorado, Denver |
| Oral Presentation 26 | Evaluating Microbial Diversity and Adaptation: New Opportunities for Insight in a Data Rich World Catherine Lozupone, University of Colorado, Boulder |
| Oral Presentation 27 | Wow! That's Really Interesting! Hannah Tipney, University of Colorado, Boulder |
| Oral Presentation 28 | Global Optimization in Nonlinear Models: Optimization and Evolution in Metabolic Networks Albert Sorribas, CMB - IRBLLEIDA - University of Lleida |
| Oral Presentation 29 | Virus Discovery by Deep Sequencing and Assembly of Virus-derived Small Silencing RNAs Qingfa Wu, University of California, Riverside |
| Oral Presentation 30 | Prediction of Protein Protein Interaction Sites and Their Impact on Genetic Disease Angshuman Bagchi, Buck Institute for Age Research |
| Oral Presentation 31 | Optimal Nearest Shrunken Centroids Method for High-dimensional Data Classification Tiejun Tong, University of Colorado, Boulder |
| Oral Presentation 32 | Retrobiosynthesis: Searching Backwards, Looking Forwards Dan McShan, University of Colorado, Denver |
| Keynote 4 (Joint Keynote) |
Strategies for Elaborating Cognitive Requirements of Bioinformatics Tools Ben Keller, PhD, Associate Professor Computer Science Department Eastern Michigan University and Barbara MirelAssociate Research Scientist School of Education, University of Michigan NCIBI Core Director of Evaluation, Education and Training |
| Oral Presentation 33 | Experiments with Biological Concept Recognition Tools Karin Verspoor, University of Colorado, Denver |
| Oral Presentation 34 | Test Suite Design for Biomedical Ontology Concept Recognition Systems K. Bretonnel Cohen, University of Colorado, Denver |
| Oral Presentation 35 | Predicting Protein Linkages in Bacteria: Which Method is Best Depends on Task Anis Karimpour-Fard, University of Colorado, Denver |
| Oral Presentation 36 | A Metagenomic Study of a Microbial Mat in a Hawaiian Lava Cave Gayle K. Philip, NASA Astrobiology Institute |
| Oral Presentation 37 | Mobile Metagenomics: Annotating DNA Sequences On A Cell Phone Josh Hoffman, San Diego State University |
| Oral Presentation 38 | The Colorado Richly Annotated Full-Text (CRAFT) Corpus: A Resource for BioNLP Research Michael Bada, University of Colorado, Denver |
| go directly to: [Thursday - December 10] [Friday - December 11] | |
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| Saturday – December 12, 2009 | |
| Keynote 5 | ChEMBL - Large-scale Open Access Data for Drug Discovery John P. Overington, PhD CChem. European Bioinformatics Institute (EMBL-EBI) |
| Oral Presentation 39 | Subgraphs of Protein-protein Interaction Networks with High Connectivity Suzanne Gallagher, University of Colorado, Boulder |
| Oral Presentation 40 | TreeHugger: A New Test for Enrichment of Gene Ontology Terms Daniel Jupiter, Texas A&M Health Science Center |
| Oral Presentation 41 | Pattern-Based Extraction of Argumentation from the Scientific Literature Elizabeth White, University of Colorado, Boulder |
| Oral Presentation 42 | Early Host Response During Influenza Infections Christian V. Forst, University of Texas |
| Oral Presentation 43 | Boolean Network Models of Human Aging Michael Verdicchio, Arizona State University |
| Oral Presentation 44 | Positive Selection and Functional Shift: Human Heme Peroxidase Case Study Mary J. O'Connell, Dublin City University |
| Oral Presentation 45 | Delving into the Bacteriome:Protein-protein Interactions in E. coli John Parkinson, Hospital for Sick Children |
| Oral Presentation 46 | Simplified Clustering with Dirichlet Process and Other Process Mixtures Matthew Shotwell, Medical University of South Carolina |
| Oral Presentation 47 | Real Time Metagenomics Robert Edwards, San Diego State University |
| Oral Presentation 48 | Structure Discovery in PPI Networks Using Pattern-Based Network Decomposition Ying Liu, University of Texas, Dallas |
| Oral Presentation 49 | Data Mining Over Directed Transcription Factor Networks Rauf Malick, Bahria University |
| Keynote 6 | Informatics Challenges for Pharmacogenetic Russ B. Altman, MD, PhD Professor of Bioengineering Genetics, Medicine (& Computer Science, by courtesy) Chair, Bioengineering Director Biomedical Informatics Training Program Stanford University |
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| return to: [Thursday - December 10] [Friday - December 11] [Saturday - December 12] | |