| Time | Speaker | Org | Title |
|---|
| 9:00 | Registration/Refreshments | | |
| 9:20 | Peter Karp | SRI | [PPT] Welcome to the Conference |
| 9:30 | Tomer Altman | Altman Analytics LLC | Modeling and data mining of the human microbiome using BioCyc |
| 10:00 | Suzanne Paley | SRI | [PPT] The Omics Dashboard |
| 10:30 | Coffee Break | | |
| 11:00 | Jaeyun Sung | Mayo Clinic | [PPT] Global metabolic interaction network of the human gut microbiota for context-specific community-scale analysis |
| 11:30 | Peter Karp | SRI | [PPT] A community effort to model the human microbiome |
| 12:00 | Madeline Tong | McMaster University | Identifying gene essentiality patterns in different carbon environments |
| 12:30 | Lunch Break | | |
| 2:00 | Nathalie Scholler | SRI | [PPT] Unexpected links between gut microbiome and cancer progression and therapy |
| 2:30 | Andrew Hryckowian | Stanford University | Microbiota accessible carbohydrates facilitate clearance of Clostridium difficile |
| 3:00 | Gregory Harhay | USDA | [Prezi] Using Pathway Tools to solve problems in livestock agriculture |
| 3:30 | Coffee Break | | |
| 4:00 | Peter Midford | SRI | [PPT] Working with data from the Metabolomics Workbench |
| 4:20 | Group Discussion | | |
| 5:30 | End of 1st Day | | |
| Time | Speaker | Org | Title |
|---|
| 9:00 | Refreshments | | |
| 9:30 | Jeremy Zucker | PNNL | [PPT] A statistical thermodynamic approach for modeling metabolism |
| 10:00 | Mario Latendresse | SRI | Modeling microbial community with Metaflux |
| 10:30 | Coffee Break | | |
| 11:00 | Dario Fernandez Do Porto | University of Buenos Aires | [PDF] Target-Pathogen: a structural bioinformatic approach to prioritize drug targets in pathogens |
| 11:30 | Bridget Bannerman | University of Cambridge | Comparative pathway analyses of Mycobacterium species provide insight into the design and characterisation of new drug targets |
| 12:00 | Suzanne Paley | SRI | [PPT] Pathway Collages |
| 12:30 | Lunch Break | | |
| 2:00 | Hao Wang | Chalmers University of Technology | [PDF] The RAVEN Toolbox 2.0: a versatile platform for metabolic network reconstruction and a case study on Streptomyces coelicolor A3(2) |
| 2:30 | Mario Latendresse | SRI | The gap filling accuracy of FBA Development Mode in MetaFlux |
| 3:00 | Markus Krummenacker | SRI | [PPT] Cross-organism RouteSearch |
| 3:30 | Coffee Break | | |
| 4:00 | Group Discussion | | |
| 5:00 | Peter Midford | SRI | [PPT] BioCyc Consulting Services |
| 5:30 | End of 2nd Day | | |
| Time | Speaker | Org | Title |
|---|
| 9:00 | Refreshments | | |
| 9:30 | Todd DeSantis | Second Genome | Piphillin web tool: Prediction of BioCyc reaction capacity dynamics by inference from 16S rRNA frequency dynamics in human microbiomes |
| 10:00 | Eric Franzosa | Harvard University | [PPT] Functionally profiling metagenomes and metatranscriptomes at species-level resolution |
| 10:30 | Coffee Break | | |
| 11:00 | Trent Northen | JGI | [PPT] Metabolomic investigations of microbial interactions and functional annotations |
| 11:30 | Joonhoon Kim | JBEI | Multi-omics analysis of Rhodosporidium toruloides producing biofuels from depolymerized polysaccharides and lignin |
| 12:00 | Alex Bishara | Stanford University | [PPT] De novo assembly of microbial genomes from human gut metagenomes using barcoded short read sequences |
| 12:30 | Lunch Break | | |
| 2:00 | Bongkeun Song | College of William and Mary | Identification and metabolic interference of the eastern oyster core microbiome |
| 2:20 | Sean Lim | University of Southern California | [GDocs] Quantitative variation in flagella-mediated collective migration among enteric bacteria |
| 2:40 | Richard Billington | SRI | [PPT] Webgraphics |
| 2:55 | Suzanne Paley | SRI | [PPT] New search tools for DNA sites, organism properties |
| 3:15 | Suzanne Paley | SRI | [PPT] Update Notifications |
| 3:30 | Coffee Break | | |
| 4:00 | Ron Caspi | SRI | [PPT] The EC system |
| 4:30 | Wai Kit Ong | SRI | [PPT] Maintaining the EcoCyc Model |
| 4:50 | Group Discussion | | |
| 5:20 | Peter Karp | SRI | Closing Remarks |
| 5:30 | End of Conference | | |
R&D Divisions