Proposal Title: Machine learning software for viral sequence analysis and diagnostics
Grantee Institution: Natural Selection Inc.    Support: Current     Dates: 7/06-12/06
Grant Number and Type: NSF OII-0610688 SBIR Phase I
Source of Support: National Science Foundation     Total Award Amount: $100,000
Role on Project: Consultant     
Project Summary: The goal of this project is to utilize evolving neural networks to identify novel genetic attributes of HIV genetic sequences associated with viral tropism.

Proposal Title: HIVbase, Data Integration Software to Support the Study of Chronic Viruses
Grantee Institution: Gene Johnson Inc.        Support: Current     Dates: 1/04- 1/02/07  
Grant Number and Type: NSF DMI- 0349669 SBIR Phase II, Phase IIb, IICC:
Source of Support: National Science Foundation     Total Award Amount: $678,871  
Role on Project: Principal Investigator
Project Summary: The goal of this project is to implement new algorithms for alignments, search protocols and data formatting into HIVbase software developed in Phase I.

Proposal Title: HIV Sequence Evolution in AIDS Dementia Pathogenesis.
Grantee Institution: University of California at San Francisco  Support: Current  Dates: 12/04- 12/09
Grant Number and Type: NIH ZMH1 BRB-S , R01
Source of Support: National Institutes of Health    Total Award Amount: $5,000,000
Role on Project: Consultant
Project Summary: The goal of this project is to investigate the evolution of HIV sequences present in the CNS and other tissues of HAD patients.

Proposal Title: West Coast AIDS and Cancer Specimen Resource
Grantee Institution: University of California at San Francisco   Support: Current  Dates: 6/02-6/07
Grant Number and Type: UO1 CA66259-09 TDC
Source of Support: National Institutes of Health    Total Award Amount: $7,515,580
Role on Project: Consultant
Project Summary: The major goal for this project is to preserve, supply and perform research on tissues from autopsies of patients that died with AIDS, cancer or both.

Proposal Title: Mutation rate heterogeneity in measurably evolving populations
Grantee Institution: University of Washington   Support: Pending    Dates: 9/07-8/12
Grant Number and Type: NIH R01
Source of Support: National Institutes of Health      Total Award Amount: $3,478,219
Role on Project: Consultant
Project Summary: To extend the LAMARC program to handle variation in mutation rates among compartments and over time, and allow co-estimation of these rates along with compartmental population sizes, recombination rates, migration rates and selection coefficients.


Other Support: National Institutes of Health, subcontracted through SAIC-Frederick, HIV phylodynamic analysis and database support for multi-site Uganda HIV evolution project.