The purpose of Core D is to provide the bioinformatics and statistics support necessary for completing shRNAmir-based genetic screens using deep sequencing technology. The Director of Core D is Bjoern Peters. Dr. Peters has long and successful track record of scientific publications on bioinformatics intensive topics. Drs. Peters and Crotty have multiple scientific publications together, and have been collaborators on studies of antiviral immunity for six years. Drs. Peters and Pipkin have also worked together for multiple years on bioinformatics intensive projects, and they currently have two co-authored research papers submitted for publication.
The Specific Aims of the Bioinformatics and Statistics Core are as follows: 1. To provide the bioinformatics support necessary for completing shRNAmir-based genetic screens using deep sequencing technology. 2. To provide statistics support for data analysis and interpretation.

Public Health Relevance

Bioinformatics and statistics are essential parts of data processing and analysis for all three Projects in this U19, and almost all individual Aims of each Project. Drs. Peters, Pipkin, and Crotty have collaborated over the past 18 months to develop the necessary bioinformatics to rapidly analyze shRNAmir sequences from an lon Torrent output and rigorous match the correct DNA seqeunces.

Agency
National Institute of Health (NIH)
Institute
National Institute of Allergy and Infectious Diseases (NIAID)
Type
Research Program--Cooperative Agreements (U19)
Project #
1U19AI109976-01
Application #
8711630
Study Section
Special Emphasis Panel (ZAI1-ZL-I (J1))
Project Start
Project End
Budget Start
2014-03-01
Budget End
2015-02-28
Support Year
1
Fiscal Year
2014
Total Cost
$5,612
Indirect Cost
$905
Name
La Jolla Institute
Department
Type
DUNS #
603880287
City
La Jolla
State
CA
Country
United States
Zip Code
92037
Chen, Runqiang; BĂ©langer, Simon; Frederick, Megan A et al. (2014) In vivo RNA interference screens identify regulators of antiviral CD4(+) and CD8(+) T cell differentiation. Immunity 41:325-38
Crotty, Shane (2014) T follicular helper cell differentiation, function, and roles in disease. Immunity 41:529-42