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

Details and Registration Information: pdf MS Word

Held On:	Mon 7/21/2008 - Fri 7/25/2008
Location:	Doubletree Hotel Birmingham Heritage 2 Meeting Room 808 South 20th Street Birmingham, AL 35205 (205) 933-9000; fax (205) 933-0920 When making your reservation, please identify yourself as with the "Statistical Genetics short course" group to receive the reduced room rate.

Overview:

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: Agenda

DATE	TIME	TOPIC	SPEAKER	Resource(s)
Mon 7/21/2008	8:00 - 9:00 am	Registration
	9:00 - 9:15 am	Introductory Remarks	Hemant K. Tiwari, Ph.D.
	9:15 - 10:00 am	Discussion: Interests & Expectations	Participants
	10:00 -10:15 am	Break
	10:15 - 12:00 pm	Introduction to Biostatistics	Warren Ewens, Ph.D.	Notes, Slides
	10:15 - 12:00 pm	Introduction to Genetics & Genomics	Robert Elston, Ph.D.
	12:00 - 1:30 pm	Lunch
	1:30- 2:00 pm	Case Control and Association Testing	David B. Allison, Ph.D.
	2:00- 3:15 pm	The qualitative and the quantitative TDT (Transmission - Disequilibrium Test)	Warren Ewens, Ph.D.	Notes, Slides
	3:15 - 3:30 pm	Break
	3:30 - 4:15 pm	Structured Association Testing (SAT)	David B. Allison, Ph.D.
	4:15 - 5:00 pm	Discussion	All Faculty
DATE	TIME	TOPIC	SPEAKER	Resource(s)
Tue 7/22/2008	8:00 - 9:00 am	PLINK Tutorial	Hemant K. Tiwari, Ph.D.
	9:00 - 9:15 am	Break
	9:15 - 10:30 am	Haplotype Analysis in Association Studies	Kui Zhang, Ph.D.
	10:30 - 11:45 am	Design of Microarray Experiments	Guilherme Rosa, Ph.D
	11:45 - 1:15 pm	Lunch
	1:15 -2:30 pm	Microarray: array types, quality control, and systems biology	Grier Page, Ph.D.
	2:30 - 2:45 pm	Break
	2:45 - 4:00 pm	Microarray Analysis: Inference	Sandra Rodriquez-Zas, Ph.D.
	4:00 - 5:15 pm	Basic Experimental Cross QTL analysis	Xiangqin Cui, Ph.D.
	5:15 - 5:45 pm	Discussion	All Faculty
DATE	TIME	TOPIC	SPEAKER	Resource(s)
Wed 7/23/2008	8:00 - 9:00 am	Bioconductor	Xiangqin Cui, Ph.D.
	9:00 - 9:15 am	Break
	9:15 - 10:30 am	Bayesian Interval Mapping	Brian Yandell, Ph.D.
	10:30 - 11:45 am	Bayesian Hierarchical Generalized Linear Models for QTL Analysis	Nengjun Yi, Ph.D.
	11:45 - 1:15 pm	Lunch
	1:15 -2:30 pm	Multivariate trait selection and estimation of multivariate fitness functions	Bruce Walsh, Ph.D.
	2:30 - 2:45 pm	Break
	2:45 - 4:00 pm	Whole Genome Enabled Marker Assisted Selection	Guilherme Rosa, Ph.D.
	4:00 - 5:15 pm	Detecting selection using molecular signature -- Intra-specific approach	Yunxin Fu, Ph.D.
	5:15 - 5:45 pm	Discussion	All Faculty
DATE	TIME	TOPIC	SPEAKER	Resource(s)
Thu 7/24/2008	8:00 - 9:00 am	Software Demonstration (HDBSTAT, Power Atlas - Genomics Microarray)	Jelai Wang
	9:00 - 9:15 am	Break
	9:15 - 10:30 am	Methods, Examples, and Implications of Integrative Biology	Atul Butte, Ph.D.
	10:30 - 11:45 am	Genome-Wide Association, Copy Number Variation and Biological Pathway Analysis	Carl Langefeld, Ph.D.
	11:45 - 1:15 pm	Lunch
	1:15 -2:00 pm	Discussion	All Faculty
	3:00 - 6:00 pm	R/qtlbim Software Demo	Brian S. Yandell, PhD
		Bayesian QTL mapping without tears	Nengjun Yi, PhD
		Software Demonstration: HAPLOVIEW and HAPLORE	Kui Zhang, PhD
		JMP Genomics	Amit Patki
		Ingenuity Systems Pathway Analysis (IPA)	Kelly Vaughan, Ph.D.
	6:00 - 7:00 pm	Dinner
	7:00 - 9:00 pm	Hands-on	Faculty (Hemant K. Tiwari, Ph.D.)
DATE	TIME	TOPIC	SPEAKER	Resource(s)
Fri 7/25/08	9:00 - 12:00 pm	Roundtable Discussion	Faculty (David B. Allison, Ph.D.)

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.

UAB Faculty:

External Faculty:

Atul Butte, M.D., Ph.D.: Stanford University
Robert Elston, Ph.D.: Case Western Reserve University
Warren J Ewens, Ph.D.: The University of Pennsylvania
Yun-Xin Fu, Ph.D.: The University of Texas
Carl Langefeld, Ph.D.: Wake Forest University
Sandra L. Rodriguez-Zas, Ph.D.: University of Illinois - Urbana
Guilherme J. M. Rosa, Ph.D.: University of Wisconsin - Madison
Bruce Walsh, Ph.D.: University of Arizona - Tucson
Brian Yandell, Ph.D.: University of Wisconsin - Madison

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

Funded by:

Sponsors:

Contributor:

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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