|
Home
Registration
Event details
Agenda
Wiki
Gaggle
Baliga Lab
Contact
|
|
Systems Bioinformatics Workshop
The 2 day workshop will consist of presentations, tutorials, a hackathon and lightning talks.
Speakers
- Paramvir Dehal, Computational Research Scientist/Engineer, MicrobesOnline, KBase
- Max Franz, Software Engineer and User Interface Designer, Cytoscape Web
- Michael Kellen, Director of Technology at Sage Bionetworks
- Keiichiro Ono, Core Developer of the Cytoscape project
- James Taylor, Assistant Professor in the departments of Biology and Mathematics & Computer Science at Emory University and one of the original developers of Galaxy.
- Matt Wood, Amazon Web Services
- Elizabeth M. Glass, The Community Outreach Team Lead at DOE Systems Biology Knowledgebase
Tutorials
- Chris Plaisier and Wei-ju Wu on Infering regulatory networks with Python cMonkey
- Cloud Computing with EC2
- Andrea Eakin on Neo4J
- Dick Kreisberg on Visualization
Agenda
| Monday - September 10, 2012 (Seattle Biomed) |
|---|
| 8:30 am | 30 mins | Breakfast |
| 9:00 am | 15 mins | Nitin Baliga (Institute for Systems Biology) Welcome and Introduction |
| 9:15 am | 45 mins | Ilya Shmulevich (Institute for Systems Biology) Keynote (TBD) |
| 10:00 am | 30 mins | James Taylor (Emory University) "Accessible, transparent and reproducible analysis with Galaxy" |
| 10:30 am | 15 mins | 15 minute break |
| 10:45 am | 30 mins | Keiichiro Ono (University of California, San Diego) "Introduction to Cytoscape 3 architecture, current status, and future plan" |
| 11:15 am | 45 mins | Paramvir Dehal (Lawrence Berkeley National Laboratory) "The DOE Systems Biology Knowledgebase" |
| 12:00 pm | 90 mins | Lunch |
| 1:30 pm | 30 mins | Matt Wood (Amazon Web Services) TBD |
| 2:00 pm | 30 mins | Max Franz (University of Toronto) "Cytoscape.js" |
| 2:30 pm | 30 mins | Michael Kellen (SAGE Bionetworks) "Supporting open, reproducible, scientific research with SAGE Bionetwork's Synapse platform" |
| 3:00 pm | 15 mins | 15 minute break |
| 3:15 pm | 30 mins | Nathan Price (Institute for Systems Biology) TBD |
| 3:45 pm | 75 mins | Elizabeth M. Glass (Argonne National Laboratory) "Using KBase for FBA model creation and reconciliation" |
| 5:00 pm | 15 mins | Closing Comments/Next Day Planning |
| 6:00 pm | | Reception (Institute for Systems Biology) |
| Tuesday - September 11, 2012 (Seattle Biomed) |
|---|
| 8:30 am | 30 mins | Breakfast |
| 9:00 am | 15 mins | Serdar Turkarslan (Institute for Systems Biology) Welcome and Introduction |
| 9:15 am | 30 mins | Christopher Plaisier & Wei-ju Wu (Institute for Systems Biology) Tutorial: "Inferring regulatory networks with Python cMonkey" |
| 9:45 am | 45 mins | Matt Wood (Amazon Web Services) Tutorial: "Cloud Computing with EC2" |
| 10:30 am | 15 mins | 15 minute break |
| 10:45 am | 30 mins | Andrea Eakin (Institute for Systems Biology) Tutorial: "An Introduction to Neo4j and Graph Traversals" |
| 11:15 am | 30 mins | Dick Kreisberg (Institute for Systems Biology) Tutorial: "Interactive Data Visualization for the Web" |
| 12:00 pm | 90 mins | Lunch |
| 1:30 pm | 30 mins | TBD (MathWorks) Tutorial: (Title TBD) |
| 2:00 pm | 2h 45 mins | Hackathon "Gaggle-Kbase Integration"
"D3" |
| 4:45 pm | 15 mins | Closing Comments |
More details coming soon...
In the meantime, to submit a talk or tutorial, please contact:
Serdar Turkarslan
sturkarslan at systemsbiology.org
|
