Preliminary Program
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5:00 PM - 9:00 PM |
Registration (Meeting Room Foyer, Conference Level) |
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8:00 AM - 5:00 PM |
Registration (Meeting Room Foyer, Conference Level) |
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Tutorials and Workshops |
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8:00 AM – 10:00 AM |
Workshop: Graph Techniques for Biomedical Networks (Diplomat/Ambassador Room) |
Workshop: CSBW 2009 (Cabinet/Judiciary Room) |
Workshop: Data Mining for Biomarker Discovery (Old Georgetown Room) |
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Break (Meeting Room Foyer) |
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10:15 AM – 12:15 PM |
Workshop: Applications of Machine Learning in Bioinformatics (Diplomat/Ambassador Room) |
Workshop: CSBW 2009 (cont’) (Cabinet/Judiciary Room) |
Workshop: Data Mining in Functional Genomics (Old Georgetown Room) |
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Lunch break |
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1:15 PM – 3:15 PM |
Workshop: NLP Approaches for Unmet Information Needs in Health Care (Diplomat/Ambassador Room) |
Workshop: CSBW 2009 (cont’) (Cabinet/Judiciary Room) |
Tutorial: Knowledge-Based Study of Protein Structure-Function Correlations using Computational Geometry (Iosif Vaisman) (Old Georgetown Room) |
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Break (Meeting Room Foyer) |
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3:30 PM – 5:30 PM |
Workshop: NLP Approaches for Unmet Information Needs in Health Care (cont’) (Diplomat/Ambassador Room) |
4:30 PM – 5:30 PM Tutorial: 2010 and beyond, the decade of high-performance computing for the next-generation sequence analysis (Mary Qu Yang) (Cabinet/Judiciary Room) |
Tutorial: Nucleotide Genomic Signal (NuGS) Representation and Processing (Paul Dan Cristea) (Old Georgetown Room) |
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7:00 PM – 9:00 PM |
Opening Reception/Poster Presentation (Concourse Terrace) |
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8 AM – 5 PM |
Registration (Meeting Room Foyer, Conference Level) |
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8:30 AM |
Opening Remarks (Cabinet/Judiciary Room) |
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8:40 AM |
Keynote: Chris Sander (Cabinet/Judiciary Room) |
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9:30 AM |
Genome-Phenome Analysis (Cabinet/Judiciary Room) Chair: Michael Ochs 1. Towards identification of human disease phenotype-genotype association via a network module-based method. Jiang et al. 2. Integrated Analysis of Pharmacokinetic, Clinical, and SNP Microarray Data using Projection onto the Most Interesting Statistical Evidence with Adaptive Permutation Testing. Pounds et al. 3. Discovering Protein Biomarkers by Correlating Functional Genomics Proteomics Results. Jeong and Chen |
Protein Interaction Networks (Diplomat/Ambassador Room) Chair: Mark Gerstein 1. Modeling Protein Interaction Networks with Answer Set Programming. Fayruzov et al. 2. Restructuring protein interaction networks to reveal structural hubs and functional organizations. Cho and Zhang 3. High Functional Coherence in Protein Multicliques of Protein Interaction Networks. Liu and Li |
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10:30 AM |
Break (Meeting Room Foyer) ; Poster/Exhibits (Cartier/Tiffany Room) |
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11:00 AM
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Next-Gen Sequencing and Metagenomics (Cabinet/Judiciary Room) Chair: Owen White ad Alignment via Bi-directional BWT. Lam et al. 2. Evaluation of Gene Annotation Accuracy by Inferring Transcripts from RNA-Seq. Martin et al. 3. Towards Reliable Isoform Quantification using RNA-Seq Data. Howard and Heber |
Biological Data Mining (Diplomat/Ambassador Room) Chair: Olivier Bodenreider 1. Ensemble Learning Based on Active Example Selection Solving Imbalanced Data Problem in Biomedical Data. Lee et al. 2. In silico Correction of Normal Tissue Contamination in Analyzing Copy Number Changes. Yu et al. 3. A Fast, Semi-Automatic Brain Structure Segmentation Algorithm for Magnetic Resonance Imaging. Kevin Karsch et al. |
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12:00 N |
Lunch on your own; Poster/Exhibits (Cartier/Tiffany Room) |
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2:00 PM |
Gene Regulation, Network/Pathway Analysis (Cabinet/Judiciary Room) Chair: Luonan Chen Invited Speaker: Luonan Chen 1. Predicting yeast synthetic lethal genetic interactions using SVM. Li and Luo 2. DASSO-MB: Detection of Epistatic Interactions in Genome-Wide Association Studies Using Markov Blankets. Han et al. |
Biomedical Intelligence, Clinical Data Analysis (Diplomat/Ambassador Room) Chair: David States Invited Speaker: Jack London (Issues Relating to the Secondary Use of Clinical Data for Research) 1. Building a Standards-Based and Collaborative E-Prescribing Tool—MyRxPad. Nelson et al. 2. Differential Prediction for Modeling Racial Disparities in Breast Cancer. Palit et al. |
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3:15 PM |
Break (Meeting Room Foyer); Poster/Exhibits (Cartier/Tiffany Room) |
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3:45 PM |
High Performance Computing (Cabinet/Judiciary Room) Chair: Michela Taufer Invited Speaker: Srinivas Aluru (Parallel Assembly of Large Genomes from Paired Short Reads) 1. Towards A Better Ranking for Biomedical Information Retrieval Using Context. Yin et al. 2. Application of Kernel Functions for Accurate Similarity Search in Large chemical Databases. Wang et al. |
Biological sequence analyses (Diplomat/Ambassador Room) Chair: Jean-Francois Tomb Invited Speaker: Mark Gerstein (Human Genome Annotation) 1. An Algorithm for the Discovery of Phenotype Related Metabolic Pathways. Schmidt and Samatova 2. Detection of Gene Orthology Based On Protein-Protein Interaction Networks. Towfic et al. |
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5:00 PM |
Keynote: Trey Ideker (New Challenges and Opportunities in Network Biology) (Cabinet/Judiciary Room) |
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5:45 PM |
Dinner on your own |
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7:00 PM |
Evening Workshop: Bioinformatics Education (Cabinet/Judiciary Room) |
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8 AM – 5 PM |
Registration (Meeting Room Foyer, Conference Level) |
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8:30 AM |
Opening remarks (Cabinet/Judiciary Room) |
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8:40 AM |
Keynote: Stephen Wong (A new systems biology strategy for drug repositioning and recombination) (Cabinet/Judiciary Room) |
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9:30 AM |
Break (Meeting Room Foyer); Poster/Exhibits (Cartier/Tiffany Room) |
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10:00 AM |
Funding Agency Roundtable (Cabinet/Judiciary Room) |
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12:00 N |
Lunch on your own; Poster/Exhibits (Cartier/Tiffany Room) |
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1:00 PM |
Poster Presentation (Cartier/Tiffany Room) |
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3:00 PM |
Protein/RNA Structure, Function and Interactions (Cabinet/Judiciary Room) Chair: Li-San Wang Invited Speaker: Michael Gribskov (Identifying Conserved Pseudoknotted RNA structures Using a Graph-based Comparative Approach 1. Bioinformatics pipeline for identification of binding motifs of flexible protein tethers. Ram and Lu 2. Biological Feature Incorporated Alignment for Cross Species Analysis on Carbohydrate Binding Modules. Chou et al. |
Computational Modeling and Data Integration (Diplomat/Ambassador Room) Chair: Srinivas Aluru Invited Speaker: Bhaskar DasGupta (Synthesizing and simplifying biological networks from pathway level information) 1. GAM: Genomic Assemblies Merger. A Graph Based Method to Integrate Different Assemblies. Casagrande et al. 2. GemAffinity: A Scoring Function for Predicting Binding Affinity and Virtual Screening: Hsu et al., |
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4:15 PM |
Break(Meeting Room Foyer) ; Poster/Exhibits (Cartier/Tiffany Room)
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4:45 PM
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Biomarker Discovery (Cabinet/Judiciary Room) Chair: Jack London Invited Speaker: Michael Ochs (Treatment Biomarkers for Cell Signaling in Cancer) 1. Identifying MiRNA and Imaging Features Associated with Metastasis of Lung Cancer to the Brain. Nasser et al. 2. Multiagent Approach for Identifying Cancer Biomarkers. Alhajj |
Transcriptomics - Microarray Data Analysis (Diplomat/Ambassador Room)
Chair: Michael Gribskov Invited Speaker: Owen White 1. Identifying Gene Signatures from Cancer Progression Data Using Ordinal Analysis. Pyon and Li 2. A Multi-Task Feature Selection Filter for Microarray Classification. Lan and Vucetic |
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6:00 PM |
Evening Banquet (Haverford/Baccarat) |
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8:30 AM |
Opening Remarks (Cabinet/Judiciary Room) |
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8:40 AM |
Keynote: David States (Cabinet/Judiciary Room) |
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9:30 AM |
Best Paper and Poster Award Presentation (Cabinet/Judiciary Room) |
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10:00 AM |
Break (Meeting Room Foyer) |
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10:20 AM |
Biomedical Signal/Image Analysis (Cabinet/Judiciary Room) Chair: Michael Krauthammer 1. Biofilm Image Segmentation Using Optimal Multi-Level Thresholding. Rojas et al. 2. Model-based ECG Denoising Using Empirical Mode Decomposition. Lu et al. 3. Extraction of Respiratory Rate from Impedance Signal Measured on Arm: A Portable Respiratory Rate Measurement Device. Ansari et al. 4. Feature Extraction for Pulse Waveform in Traditional Chinese Medicine by Hemodynamic Analysis. Yan et al. |
Protein/RNA Structure, Function and Interactions (Diplomat/Ambassador Room) Chair: Jianlin Cheng 1. Sequence-Based Prediction of Protein Folding Rates Using Contacts, Secondary Structures and Support Vector Machines. Lin et al. 2. Extremal Optimization for the Contact Map Overlap Problem. Lu et al. 3. Neural Grammar Networks in QSAR Chemistry. Ma and Kremer 4. Accurate Prediction of Stability Changes in Bacteriophage T4 Lysozyme Upon Single Amino Acid Replacements. Masso et al. |
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11:40 AM |
Lunch on your own |
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1:00 PM |
Gene Regulation, Alternative Splicing, Network/Pathway Analysis (Cabinet/Judiciary Room) Chair: Doheon Lee 1. Exploratory Analysis of Protein Translation Regulatory Networks Using Hierarchical Random Graphs. Wu and Hu 2. Qualitative Motif Detection in Gene Regulatory Networks. Ibrahim et al. 3. Disease Classification based on the Activities of Interacting Molecular Modules with Condition-responsive Correlations. Lee et al. 4. Side Effect Prediction using Cooperative Pathways. Fukuzaki et al. |
Computational Modeling and Data Integration (Diplomat/Ambassador Room) Chair: Bhaskar DasGupta 1. Determination of Major Lineages of Mycobacterium tuberculosis using Mycobacterial Interspersed Repetitive Units. Aminian et al. 2. A Novel Deterministic-Stochastic Crossover Method for Simulating Biochemical Networks. Sabnis and Harrison 3. Activated Germinal-Center B Cells Undergo Directed Migration. O'Connor et al. 4. Pancreas Modeling from IVGTT Data Using A Deterministic Optimal Search Method. Lv and Goodwine |
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2:20 PM |
4th Annual Conference (BIBM-2010) Presentation Closing Remarks (Cabinet/Judiciary Room) |
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Announcements
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BIBM2009 Flyer