2013 Archived Content
Second Annual

Bioinformatics in the Genome Era

Understanding the Evolving Role of Bioinformatics in Molecular Medicine


Day 1 | Day 2 | Day 3 

Friday, February 15

8:00 am Morning Coffee


Bioinformatics in Translational Medicine: Systems Biology Approaches 

8:30 Chairperson’s Remarks
Saras Saraswathi, Ph.D., Postdoctoral Research Associate, Battelle Center for Mathematical Medicine, The Research Institute of Nationwide Children's Hospital 

8:35 Metabolic Diseases: Modulation of Microbiome

Deepak Rajpal, Ph.D., Senior Scientific Investigator, Computational Biology, Medicines Discovery & Development, GlaxoSmithKline

We present a proof-of-concept study where modulation of gut microbiome revealed novel associations with metabolic improvements in rodents.This is an important step in evaluating the gut microbiome changes with metabolic improvements.

9:05 Systems Biology: A Molecular Nutrition Perspective

Corrado Priami, Ph.D., President and CEO, The Microsoft Research - University of Trento Centre for Computational and Systems Biology (COSBI)

Omics data are often collected in conjunction with markers of clinical health and lifestyle information. A challenge is how to address the impact of diet on health by exploiting a system-level approach that integrates this multilayer data in a coherent, functional, modular and biologically informative view.

9:35 Understanding the Impact of PI3K(p110a) Inactivation in Myocardial Infarction

David Fung, Ph.D., Postdoctoral Research Fellow, School of Biotechnology and Biomolecular Sciences, The University of New South Wales

So far, systems analyses of cardiomyopathy are not as frequent as compared to common cancers. This presentation will showcase analytics that make good use of ontology enrichment combined with network modeling to general insight into the biology of myocardial infarction.

10:05 Coffee Break


Data Integration Strategies to Support Clinical & Translational Research 

10:30 BioAssay Ontology (BAO)and the LINCS Information FramEwork (LIFE) to Integrate and Analyze Diverse High Throughput and Cellular Profiling Assay Data

Stephan Schürer, Ph.D., Center for Computational Science and Department of Molecular and Cellular Pharmacology, Miller School of Medicine, University of Miami

The lack of a established and accepted standards to describe and annotate biological assays and screening results in the domain ofhigh throughput and high content screening (HTS, HCS)is a severe limitation to utilize these valuable datasets to their maximum potential. We developed BioAssay Ontology (BAO:http://bioassayontology.org) to enable standardized description, integration and meta-analysis of various high throughput and profiling assay and screening results. BAO leverages Description Logic and Web Ontology Language to capture and formalize knowledge about assays and enable computational systems to utilize this knowledge. We illustrate our approach using data generated in the Library of Integrated Cellular Network-based Signatures (LINCS) Program, a recent large-scale systems biology data production and analysis effort funded by the NIH. Leveraging the ontology, we developed a semantic model to describe and integrate LINCS data. Weimplemented a semantic web software system, the LINCS Information FramEwork (LIFE: http://lifekb.org/) to exchange, query, and explore these datasets. Our approach facilitates the linking and classification of diverse entities, such small molecules, cellular model systems, diseases, gene and protein kinase targets, based on the underlying cellular profiling results.  

11:00 Secondary Research with Clinical Data

Shoibal Datta, Ph.D., Associate Director, R&D Information Technology, Biogen Idec

Biogen Idec has recently embarked on an ambitious strategy to embed translational approaches into every aspect of its R&D lifecycle. This has required a complete overhaul of processes and systems to support the strategy touching almost all functions within R&D.

11:30 am OpenMedNet: Toward a Future of Personalized Medicine-Bridging Genomics, Informatics and Clinical Care

Andreas M. Kogelnik, M.D., Ph.D., Director, Open Medicine Institute

OpenMedNet is an integrated, HIPAA-compliant platform that allows researchers, healthcare providers and patients, to share information while enabling novel genomic research and rigorous clinical trials as well as supporting ongoing personalized clinical care. OpenMedNet aligns longitudinal data with a coordinated biobank. 

12:00 Luncheon Presentations (Sponsorship Opportunities Available) or Lunch on Your Own


Data Integration 

1:15 Chairperson’s Remarks

1:20 Synthetic Biology beyond the Firewall: Cloud-Based Computing with Extremely High Value Data

Michael Fero, Ph.D., CEO, TeselaGen Bio

This talk presents a use-case that illustrates the cost and time benefits of using 3rd party cloud based informatics solutions vs keeping high-value data behind corporate firewalls. Recommendations on how to implement secure solutions that ensure data integrity and security will also be presented.

1:50 Berg Interrogative Biology: Personalizing Healthcare by Using Advanced Molecular Analytics

Niven Narain, Ph.D., President and CTO, Berg Pharma

This talk will review implementation and case studies of a top-of-the-art unique analytical platform for healthcare and molecular informatics. Real world application of this Bayesian artificial intelligence based approach to data analysis of massive collections of patient records, clinical information and molecular measurements will be presented.

2:20 HOMER: A Free Software Suite Designed for Biologists to Analyze Next-Generation Sequencing Data of Epigenetics and Long-Range Genomic Interactions

Yin Lin, Ph.D., Assistant Project Scientist, Biological Sciences, University of California, San Diego

This talk will describe a proven free software suite to assist researchers in performing their own analyses on NGS data in a matter of hours for quality control, data visualization, generation of hypothesis, and to hasten the process of discovery.

2:50 Close of Conference


Day 1 | Day 2 | Day 3 

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Premier Sponsors

Beckman Coulter Life Sciences 

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