1ST SHORT COURSE ON NEXT-GENERATION SEQUENCING: TECHNOLOGY AND STATISTICAL METHODS

Details and Registration Information: pdf MS Word
Held On:	Tue 12/13/2011 - Fri 12/16/2011
Lodging:	Doubletree Hotel Birmingham 808 South 20th Street Birmingham, AL 35205 (205) 933-9000; fax (205) 933-0920 *mention that you are coming at the request of UAB for the reduced rate ($129/night & $88/night gov't)
Location:	Meeting Room on the ground floor of the: Doubletree Hotel Birmingham 808 South 20th Street Birmingham, AL 35205

Overview & Agenda
Faculty
Contact Details

Next-generation sequencing technology is impacting almost all aspects of biomedical research. This technology generates an unprecedented wealth of data that demands novel analysis strategies. While IT infrastructure and bioinformatics developments are obviously required to enable sound information extraction, sophisticated statistical methodologies and algorithms are also essential for interpreting the data. In this regard, we are organizing a NHGRI funded four-day short course, calling statisticians, genetic epidemiologists, bioinformaticians, and genome biologists, to discuss the statistical challenges and opportunities in next-generation sequencing data analysis. We believe that this course will provide a venue for exchanging of cutting-edge information and ideas, and fostering collaborations among methodologists, analysts, and biomedical investigators.

Schedule of Events: [PDF file]

Tue 12/13/11 - UAB in Birmingham, AL

Time	Topic	Speaker	Resource(s)
08:30 - 09:15 AM	Registration	Wanda Skipwith
09:15 - 09:30 AM	Introductory Remarks	Hemant Tiwari PhD
09:30 - 10:45 AM	Overview of Genetics & Genomics (Intro: Sequencing for Variation & Functional Genomics)	Greg Barsh PhD
10:45 - 11:00 AM	BREAK
11:00 - 12:15 PM	Technical overview of NGS (Platforms; chemistry; library construction)	Shawn Levy PhD
12:15 - 1:30 PM	Lunch
01:30 - 02:45 PM	Primary Data Analysis (Base calling; alignment; QC)	Shawn Levy PhD
02:45 - 03:00 PM	BREAK
03:00 - 04:00 PM	Copy Number & Structural Variants (biology; experimental methods; analysis))	Devin Absher PhD
04:00 - 04:15PM	BREAK
04:15 - 05:15 PM	Re-sequencing (hybrid capture; whole genome sequencing; variant calling)	Shawn Levy PhD
05:15 - 05:45 PM	Discussion (Q & A)	All Faculty

Wed 12/14/11 - HudsonAlpha Institute for Biotechnology in Huntsville, AL Time Speaker Topic

Time	Topic	Speaker	Resource(s)
07:30 - 07:45 AM	Gather in Hotel Lobby for departure
07:45 - 9:15 AM	Bus Transportation to HudsonAlpha in Huntsville
09:15 - 9:30AM	Gather in HudsonAlpha meeting room
09:30 - 10:00 AM	Computing Needs for NGS (Computing & storage needs; data handling)	Braden Boone MS
10:00 - 11:00 AM	DNA Sequence Variant Annotation and Analysis	Greg Cooper PhD
11:00 - 11:15 PM	BREAK
11:15 - 12:15 PM	RNA-seq (mRNA & microRNA; EDGE RNA-seq, a SAGE-like, Counting Method Developed by Greg Barsh's lab)	Jay Gertz PhD
12:15 - 01:30 PM	LUNCH
01:30- 02:30 PM	Genome-scale DNA methylation analysis	Devin Absher PhD
02:30- 03:30 PM	ChIP-seq (protein:DNA Interactions on a Genome-wide Scale)	Rick Myers PhD
03:30 - 03:45 PM	BREAK
03:45 - 05:00 PM	Discussion (Q & A) & Tour of sequencing facility	All Faculty
05:00 - 06:30 PM	Bus Transportation to Hotel in Birmingham

Thu 12/15/11 - UAB in Birmingham, AL

Time	Topic	Speaker	Resource(s)
09:00 - 10:15 AM	In Silico Sequencing and Some Analysis Tools for NGS Data	Paul Scheet PhD
10:15 - 10:30 AM	BREAK
10:30 - 12:00 AM	Analysis of Whole Genome Methylation Sequencing Data	Kimberly Siegmund PhD
12:00 - 01:30 PM	Lunch
01:30 - 03:00 PM	Analysis of Whole Genome Transcriptome Sequencing Data	Xiangqin Cui PhD
03:00 - 03:15 PM	BREAK
03:15 - 04:45 PM	Structural Variation Association Analysis	Mingyao Li PhD
04:45 - 05:00 PM	Discussion (Q & A)	All Faculty

Fri 12/16/11 - UAB in Birmingham, AL

Time	Topic	Speaker	Resource(s)
09:00 - 10:15 AM	Rare Variants Association Analysis	Suzanne Leal PhD
10:15 - 10:30 AM	BREAK
10:30 - 12:00 PM	Whole Genome 3D Regulation Analysis Using Sequencing	Shili Lin PhD
12:00- 01:30 PM	Lunch
01:30 - 03:00 PM	Challenges and the Best Practice in Large-scale NGS Analysis: Lessons from 1000 Genomes	Fuli Yu PhD
03:00 - 03:15 AM	BREAK
03:15 - 05:00 PM	Discussion (Q & A)	All Faculty

UAB Faculty:

External Faculty:

Devin Absher, Ph.D. - HudsonAlpha Institute
Gregory Barsh, M.D., Ph.D. - HudsonAlpha Institute
Brandon Boone MS - HudsonAlpha Institute
Greg Cooper Ph.D. - HudsonAlpha Institute
Jay Gertz Ph.D. - HudsonAlpha Institute
Suzanne Leal PhD - Baylor College of Medicine
Shawn Levy, Ph.D. - HudsonAlpha Institute
Mingyao Li Ph.D. - University of Pennsylvania School of Medicine
Shili Lin Ph.D. - Ohio State University
Richard M. Myers, Ph.D. - HudsonAlpha Institute
Paul Scheet, Ph.D. - University of Texas M. D. Anderson Cancer Center
Kimberly D. Siegmund, Ph.D. - University of Southern California Keck School of Medicine
Fuli Yu, Ph.D. - Baylor College of Medicine Human Genome Sequencing Center (BCM-HGSC)

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

Contact Information:

Logistics: Wanda Skipwith or Derry Crawford
Department of Biostatistics
1665 University Blvd, RPHB 414
University of Alabama at Birmingham
Birmingham, AL 35294-0022
Phone: (205) 975-9193 or 975-9298
Email: statgenetics@ms.soph.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

Sponsors:	National Human Genome Research Institute

NHGRI Disclaimer: This material is based upon work supported by the National Human Genome Research Institute (NHGRI) under Grant No. R25HG006110. 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 NHGRI.

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