Great Lakes Bioinformatics Conference 2013
Full Agenda
(*Updated May 10, 2013. Schedule subject to change. )| Connect with us! | |
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| go directly to :[Wednesday - May 15] [Thursday - May 16] |
| --> MONDAY – May 13, 2013 |
| 4:00 pm - 6:00 pm - Registration University Center, Wean Commons |
| 5:00 pm - 7:00 pm Check in location: GLBIO Registration Desk Hike location: Schenley Park A Group Hike is planned for Monday, May 13, 2013 through beautiful Schenley Park www.pittsburghparks.org/schenley. Hikers will meet at the Registration Desk at the GLBIO Conference and additional details will be provided. |
| --> TUESDAY – May 14, 2013 |
| 8:00 am - 5:00 pm - Registration |
| 9:00 am - 11:00 am Location: McConomy Tutorial 1 James Faeder University of Pittsburgh School of Medicine Markus Dittrich Pittsburgh Supercomputing Center Spatial Rule-based Modeling of Cellular Biochemistry with MCell/BioNetGen/CellBlender |
| 11:00 am - 12:00 pm - Lunch |
| 12:00 pm - 2:00 pm Location: McConomy Tutorial 2 Anton Nekrutenko, Penn State University Exploring and Enabling Biomedical Data Analysis with Galaxy |
| 2:00 pm - 2:30 pm - Break |
| 2:30 pm - 4:30 pm Location: McConomy Tutorial 3 Seyoung Kim, Machine Learning in Biology Machine Learning in High Dimension for Genomic Data Analysis |
| 4:30 pm - 5:00 pm Break |
| KEYNOTE 1: ZIV BAR JOSEPH, Carnegie Mellon University 5:00 pm - 6:00 pm Location: McConomy Reconstructing Dynamic Networks in Development and Disease |
| 6:00 pm - 7:30 pm Location: Rangos Ballroom Poster Session A and Reception > Poster Presentations - Click here for a complete list of presenters. < |
| --> WEDNESDAY – MAY 15, 2013 |
| 8:50 am - 9:00 am Location: McConomy Welcome and Introduction of Keynote speaker |
| KEYNOTE 2 - IVET BAHAR, University of Pittsburgh 9:00 am - 10:00 am Location: McConomy Protein Dynamics: Relevance to Sequence Evolution and Drug Discovery |
| --> LOCATION: CONNAN - Wednesday – May 15, 2013 10:10 am -10:25 am Algorithm Development & Machine Learning Jianlin Cheng University of Missouri, Columbia Predicting protein residue-residue contacts using deep networks and boosting 10:25 am -10:40 am Algorithm Development & Machine Learning Iddo Friedberg Miami University A large-Scale Critical Assessment of Protein Function Annotations 10:40 am -10:55 am Algorithm Development & Machine Learning Hamidrez Chitsaz De Novo Wayne State University Co-assembly of Bacterial Genomes from Multiple Single Cells 10:55 am -11:10 am Evolutionary, Comparative & Meta-Genomics Surya Saha Cornell University Mining Eukaryotic Meta-Genomes for Endosymbionts using Next-Generation Sequencing 11:10 am -11:25 am Bioimage Analysis Robert Murphy Carnegie Mellon University Estimating Microtubule Distributions from 2D Immunofluorescence Microscopy Images Reveals Differences Among Human Cultured Cell Lines |
| -->LOCATION: McKENNA - Wednesday – May 15, 2013 10:10 am -10:25 am Biological Networks Jan Baumbach Max Planck Institute for Informatics KeyPathwayMiner - Extracting relevant pathways by combining OMICS data and biological network 10:25 am -10:40 am Biological Networks Thair Judeh Wayne State University TEAK: Topology Enrichment Analysis frameworK for detecting activated biological subpathways 10:40 am -10:55 am Biological Networks Graham Cromar University of Toronto Toward a systems level view of the ECM and related proteins: a framework for the systematic definition and analysis of biological systems 10:55 am -11:10 am Biological Networks Robert Patro Carnegie Mellon University Network alignment using multiscale spectral signatures 11:10 am -11:25 am Biological Networks Aviv Madar New York University A Validated Regulatory Network for Th17 Cell Specification Biological Networks 11:25 am -11:40 am Database & Ontologies: Sorin Draghici Wayne State University Detecting Phenotype-Specific Interactions between Biological Processes from Microarray Data and Annotations |
| 12:00 pm - 1:30 pm Lunch and Birds of a Feather |
| --> LOCATION: CONNAN- Wednesday – May 15, 2013 1:00 pm - 1:20 pm Clinical Informatics & Epidemiology Kun Zhao Georgia State University Building a web-based tool to support clinical decisions in the control of Chlamydia trachomatis and Neisseria gonorrhoeae infection 1:20 pm -1:40 pm Mayur Sarangdhar Cincinnati Children's Hospital Medical Center AERSMine: A Phenome-Pharmacome Web Datamine based on the FDA’s Adverse Events Reporting System Data 1:40 pm - 2:00 pm Databases & Ontologies Xinghua Lu University of Pittsburgh Conceptualization of molecular findings by mining gene annotations Databases & Ontologies 2:00 pm -2:20 pm RNA & Protein Masahito Ohue Tokyo Institute of Technology Highly Precise Protein-Protein Interaction Prediction Based on Consensus Between Template-Based and De Novo Docking Method |
| --> LOCATION: McKENNA - Wednesday – May 15, 2013 1:00 pm -1:20 pm Algorithm Development & Machine Learning Renee Drabier University of North Texas Health Science Center A Neural Network Approach to Multi-biomarker Panel Discovery by High-Throughput Plasma Proteomics Profiling of Breast Cancer 1:20 pm -1:40 pm Algorithm Development & Machine Learning Liang Lan Temple University Multi-Task Feature Selection in Microarray Data by Binary Integer Programming 1:40 pm -2:00 pm Hassan Rafiul King Fahd University of Petroleum and Minerals A New Approach to Enhance the Performance of Decision Tree for Classifying Gene Expression Data 2:00 pm -2:20 pm Luis Rueda University of Windsor MicroRNA Identification Using Linear Dimensionality Reduction with Explicit Feature Mapping |
| KEYNOTE 3: ISIDORE RIGOUTSOS, Thomas Jefferson University 2:30 pm - 3:30 pm Location: McConomy Unraveling the Rules of MicroRNA Targeting: Towards an "Expanded" Model |
| 3:30 pm - 3:45 pm Break |
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3:45 pm - 5:30 pm CV, resume, interviewing advice will be offered throughout the conference at the Career Booth! |
| 3:45 pm - 5:30 pm Location: McKenna Education Session Educating Biologists and Bioinformatics Professionals for the Future - Are We Getting It Right? Panel Co-Chairs: Guenter Tusch, Grand Valley State U, and Sarah Elgin,Washington U in St. Louis |
| 5:30 pm - 7:00 pm Location: Rangos Ballroom Poster Session B and Reception > Poster Presentations - Click here for a complete list of presenters. < |
| 7:30 pm - Banquet at the Pittsburgh Athletic Association |
| --> THURSDAY – May 16, 2013 |
| KEYNOTE 4: JING LI, Case Western Reserve University 9:00 am - 9:50 am Location: McConomy Haplotype Reconstruction in Large Pedigrees: Recent Development and Applications |
| 9:50 am - 10:00 am - Break |
| --> LOCATION: CONNAN - Thursday – May 16, 2013 10:00 am -10:10 am Personalized Genetics & Genomics Arnab Saha Mandal University of Toledo What do 1000 genomes tell us about Biased Gene Conversion theory 10:10 am -10:20 am Evolutionary, Comparative & Meta-Genomics Xuejian Xiong Hospital for Sick Childen, Toronto A Systematic Co-Expression and Co-Conservation Study of Chromatin Modification Complexes in Eukaryotes 10:20 am - 10:30 am Biological Networks Hongyu Miao University of Rochester Inferring Pre- and Post-Transcriptional Regulations in Infectious Diseases 10:30 am -10:40 am RNA & Protein Zhenqing Ye Ohio State University Computational analysis reveals a correlation of exon-skipping events with splicing, transcription and epigenetic factors 10:40 am - 10:50 am Biological Networks Nirvana Nursimulu University of Toronto Metabolic reconstruction and analysis explain differences in virulence of dominant strains of Protozoan parasite Toxoplasma gondii 10:50 am - 11:10 am Biological Networks Marzieh Ayati Case Western Reserve University Scoring protein subnetworks in terms of their disease association and network connectivity: How to compare apples and oranges? 11:10 am -11:20 am Algorithm Development & Machine Learning Naoki Orii University of Pittsburgh Inference-analytics: A necessary next step to translate computational predictions in biomedical sciences |
| -->LOCATION: McKENNA - Thursday – May 16, 2013 10:00 am - 10:10 am Algorithm Development & Machine Learning Jordan Fish Michigan State University Xander: Tool for Gene-targeted Metagenomic Assembly 10:10 am -10:20 am Databases & Ontologies Chun Liang Miami University YouGenMap: your place to load, share and compare genome maps 10:20-10:30 Bioinformatics Andrew Plassard Cincinnati Children's Hospital Applications of Computer Vision to High-Throughput Screens 10:30 am - 10:40 am Bioimage Analysis Devin Sullivan Carnegie Mellon University Predicting Subcellular Localization of Small Molecules from their Structural Features 10:40 am -10:50 am Bioimage Analysis Aparna Kumar Carnegie Mellon University Automated Analysis of Immunohistochemical Images Identifies Candidate Location Biomarkers for Cancers 10:50 am -11:10 am Algorithm Development & Machine Learning Armaghan Naik Carnegie Mellon University Active Learning of Drug Effects on Subcellular Patterns 11:10 am - 11:20 am Bioimage Analysis Gregory Johnson Carnegie Mellon University Image-derived models of morphological changes associated with neuronal differentiation of PC12 cells |
| 11:20 am - 11:30 pm Break |
| --> LOCATION: CONNAN - Thursday – May 16, 2013 11:30 am - 11:50 am Algorithm Development & Machine Learning Páll Melsted University of Iceland Parallel Memory Efficient Algorithms for Constructing de Bruijn Graphs 11:50 am - 12:10 pm Giri Narasimhan Florida International University Better Primer Design for Metagenomics Applications by Increasing Taxonomic Distinguishability 12:10 pm - 12:30 pm Algorithm Development & Machine Learning Jan Baumbach Max Planck Institute for Informatics BiCluE - Exact and Heuristic Algorithms for Weighted Bi- cluster Editing of Biomedical Data |
| -->LOCATION: McKENNA - Thursday – May 16, 2013 11:30 am - 11:50 am Personalized Genetics & Genomics Yumin Nie Southeast University Nucleosome Organization in the Vicinity of Transcription Factor Binding Sites in the Human Genome 11:50 am - 12:10 pm Algorithm Development & Machine Learning Parameswaran Ramachandran Ottawa Hospital Research Institute Adaptive Bandwidth Kernel Density Estimation for Next-Generation Sequencing Data 12:10 pm - 12:30 pm RNA & Protein Rahul Singh San Francisco State University The Impact of Parameters and Structural Diversity in Maps of the Protein Universe |
| 12:45 pm - 1:00 pm - Break |
| 1:00 pm – 1:30 pm AWARDS for Best Posters and Presentations Location: McConomy |
| 1:30 pm - Conference Adjourns |