BioMath meeting, December 18th 2009

Rocky Mountain Bioinformatics Conference MetaViewer (my project) Other presentations of merit Experience as a whole

MetaViewer (past)

MetaViewer (present)

We'll play around with the actual code for a bit, Projector Gods permitting...

MetaViewer (future)

Database Blasting versus comparison sequence model

Statistic analysis Overlaying Color-coding (more on this later)

Other Presentations: Overview

Two keynotes: Kirk Jordan of IBM Russ Altman

SDSU representatives: Dr. Edwards: RTMg Josh Hoffman: Mmg

Personally relevant: Josiah Seaman's “Skittles”

Other Presentations: Kirk Jordan

Spanning Scales - The Combination of Mathematics and High Performance Computing impacts Computational Biology

Exascale computing

Just on power costs alone, running such a computer right now would cost $2 bil annually

Average node failure every 5 minutes

Must use mutli-processor fundamentals

Other Presentations: Russ Altman

Www.pharmgkb.org How the body effects a drug

versus how the drug effects the body

Sequenced a Stanford colleague, 2 weeks, $45,000

Found drug risks, dosing information

“ball in the hardware's court now”

Other Presentations: Rob Edwards

Metagenome annotation is a very time-intensive process

~ 7 hours per annotation, used to be a week+

Real-Time Metagenomics (RTMg)

Virtually instantaneous

Trade-off of sensitivity/specificity for speed

Mobility... leading in to the next presentation!

“ball in the hardware's court now”

Other Presentations: Josh Hoffman

Mobile Metagenomics (Mmg) Google Android cell

phone based Able to view

annotations remotely Receive data

incrementally as it is ready

Save, store, and share your data

“ball is in the hardware's court now”

Other Presentations: Josiah Seaman

General idea: Use color-coding to allow the brain to process genetic information more naturally

Four nucleotides ==> four colors Text wrapping approach

We can play with the code, time permitting Clearly relevant to my project

Experience as a whole

Networking Meeting fellow researchers

Seaman's Skittles Meeting industry professionals

Familiarizing with the research “grind” Showing a poor sense of self-preservation

Skiing

See you folks in 2010!