SECOND ANNUAL NSF-FUNDED SHORT COURSE ON STATISTICAL GENETICS & STATISTICAL GENOMICS

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Details and Registration Information:  pdf   MS Word   
Held On:    Mon 7/13/2009 - Fri 7/17/2009   
Location:    Hyatt Regency Waikiki Beach Resort and Spa
2424 Kalakaua Avenue
Honolulu, HI 96815
(808) 923-1234 phone
(808) 926-3415 fax    

  • Overview & Agenda
  • Faculty
  • Contact Details

Focusing on the analysis of complex traits characterized by quantitative variation, this five-day course will offer an interactive program to enhance researchers' ability to understand & use statistical genetic methods, as well as implement & interpret sophisticated genetic analyses. Including hands-on computer demonstrations and practice, the course will be useful to a wide range of investigators studying the genetics of plants, model organisms, livestock, wildlife, and humans, helping investigators to better understand, use, and, in some cases even undertake research on, statistical genetic methods. Statistical genetic methodology is critical to advancing basic biology which is, in turn, critical to fields like genetic epidemiology, evolutionary biology, ecology, pest management, marine biology, medicine, forestry, and agriculture.

Schedule of Events: [ PDF file]

**NOTE: You will need RealPlayer to view videos.

Mon 7/13/2009

Time    Topic    Speaker    Resource(s)   
08:00 – 08:45 AM    Registration   
08:45 - 09:00 AM    Introductory Remarks    Hemant K. Tiwari, Ph.D.     
09:00 - 10:30 AM    Introduction to Biostatistics    Warren Ewens, Ph.D.     
Introduction to Genetic Analysis    Bruce Walsh, Ph.D.    Video
no slides available   
10:30 – 10:45 AM    BREAK   
10:45 – 12:00 PM    Association Analysis: Genome-Wide Association and Haplotype Analysis    Carl Langefeld, Ph.D.    Video    
12:00 – 1:00 PM    Lunch   
01:00 – 02:15 PM    The qualitative and the quantitative TDT    Warren Ewens, Ph.D.    Video    
02:15 – 2:45 PM    Open Discussion    All Faculty     
02:45 – 03:00 PM    BREAK   
03:00 – 04:15 PM    Intro to software demo lab & ssglabvm    Jelai Wang     
04:15 – 05:45 PM    Imputation Methods in GWAS    Carl Langefeld, Ph.D.    Video    

Tue 7/14/2009

Time    Topic    Speaker    Resource(s)   
08:00 – 09:15 AM    Background ancestry and other covariate modeling in genomic-wide association studies: state of the art and ongoing challenges    David B. Allison, Ph.D.    Video    
09:15 – 10:30 AM    Microarray Data Analysis    Rebecka Jörnsten, Ph.D.    Video    
10:30 – 10:45 AM    BREAK   
10:45– 12:00 PM    Design of Microarray Experiments    Guilherme Rosa, Ph.D    Video    
12:00 – 01:00 PM    Lunch   
1:00 – 1:30 PM    Open Discussion    All Faculty     
01:30 – 03:00 PM    Haplotype Software Demo & Hands-on    Hemant K. Tiwari, Ph.D.     
03:00 – 03:15 PM    BREAK   
03:15 – 05:45 PM    Microarray Software Demo & Hands-on    Jelai Wang     

Wed 7/15/2009

Time    Topic    Speaker    Resource(s)   
08:00 – 09:15 AM    Basic QTL Analysis    Soledad Fernandez, Ph.D.    Video    
09:15 – 10:30 AM    Bayesian Interval Mapping    Brian Yandell, Ph.D.    Video    
10:30 – 10:45 AM    BREAK   
10:45 – 12:00 PM    Multivariate trait selection and estimation of multivariate fitness functions    Bruce Walsh, Ph.D.    Video
no slides available   
12:00 – 01:00 PM    Lunch   
01:00 - 02:30 PM    Whole Genome Enable Marker Assisted Selection    Guilherme Rosa, Ph.D.    Video    
02:30 – 03:00 PM    Open Discussion    All Faculty     
03:00 – 03:15 PM    BREAK   
03:15 – 05:45 PM    R/qtlbim Demo & Hands-on    Brian Yandell, Ph.D.     

Thu 7/16/2009

Time    Topic    Speaker    Resource(s)   
08:00 – 09:15 AM    Design & Analysis of Copy number polymorphisms    Hemant Tiwari, Ph.D.    Video    
09:15 – 10:30 AM    Pathway Analysis: Functional Statistical Genetics & Bioinformatics    L. Kelly Vaughan, Ph.D./
David B. Allison, Ph.D.    Video    
10:30 – 10:45 AM    BREAK   
10:45– 12:00 PM    Low-level Analysis of Proteomics Data    Kimberly Sellers, Ph.D.    Video    
12:00– 01:00 PM    Lunch   
01:00 - 02:15 PM    Exploring Systems Medicine Using Translational Bioinformatics    Atul Butte, Ph.D.    Video    
02:15 – 02:30 PM    BREAK   
02:30 – 05:30 PM    CNV & Pathway Demo & Hands-on    Faculty (led by Hemant K. Tiwari, Ph.D.)     

Fri 7/17/2009

Time    Topic    Speaker   
09:00 - 12:00 PM    Roundtable Discussion    Faculty (led by David B. Allison, Ph.D.)   
01:00 – 05:00 PM    Software Demo & Hands-on   

Software Hands-On: Participants Pre-read
To insure the depth and practicality of the training program, we will provide 10 laptops to students or student pairs in the classroom. Each computer will be loaded with statistical software including but not limited to SAGE, Mx, Genehunter, Genomic Control programs, STRUCTURE, Ancestry Map, SIMWALK, MERLIN, QTL Express, R/QTL, BQTL, Dandelion, HDBSTAT!, Bioconductor Suite, Phase and Arlequin (all freely available) as well as S-Plus, SPSS and SAS. Many of the faculty have substantial expertise with the use of software for statistical genetics and have even authored some. Please feel invited to bring your own laptop.

In response to feedback from last year’s short course, we have also re-scheduled the relevant software demonstration and hands-on computer lab immediately after the lectures on each day. For example, the microarray software demo and hands-on lab will immediately follow the lectures on microarray analysis that day. In addition, the instructors will provide well-annotated slides and structure the software demonstration in such a way that students may follow each hands-on example on their own computers. Also, we have reserved four hours on the last day of the course for additional guided practice and to address remaining software questions.

UAB Faculty:

External Faculty:

Full List of External Rotating Faculty can be found by Click here.

Contact Information:

Logistics: Richard Sarver
Department of Biostatistics
1665 University Blvd, RPHB 414
University of Alabama at Birmingham
Birmingham, AL 35294-0022
Phone: (205) 975-9169
Email: rsarver@uab.edu

Scientific: Hemant K Tiwari, PhD
Department of Biostatistics
1665 University Blvd, 420B
University of Alabama at Birmingham
Birmingham, AL 35294-0022
Phone: (205) 934-4907
Email: HTiwari@ms.soph.uab.edu

We would like to thank our sponsors for their support: National Science Foundation
SSG

NSF Disclaimer:
This material is based upon work supported by the National Science Foundation under Grant No. ( NSF MCB-0650606). Any opinions, findings, and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation.

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