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

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]

**NOTE: You will need Microsoft Silverlight to view videos.

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 Video
10:45 - 11:00 AM BREAK
11:00 - 12:15 PM Technical overview of NGS (Platforms; chemistry; library construction) Shawn Levy PhD Video
12:15 - 1:30 PM Lunch
01:30 - 02:45 PM Primary Data Analysis (Base calling; alignment; QC) Shawn Levy PhD Video
02:45 - 03:00 PM BREAK
03:00 - 04:00 PM Copy Number & Structural Variants (biology; experimental methods; analysis)) Devin Absher PhD Video
04:00 - 04:15PM BREAK
04:15 - 05:15 PM Re-sequencing (hybrid capture; whole genome sequencing; variant calling) Shawn Levy PhD Video
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 Video
10:00 - 11:00 AM DNA Sequence Variant Annotation and Analysis Greg Cooper PhD Video
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 Video
12:15 - 01:30 PM LUNCH
01:30- 02:30 PM Genome-scale DNA methylation analysis Devin Absher PhD Video
02:30- 03:30 PM ChIP-seq (protein:DNA Interactions on a Genome-wide Scale) Rick Myers PhD Video
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 Video
10:15 - 10:30 AM BREAK
10:30 - 12:00 AM Analysis of Whole Genome Methylation Sequencing Data Kimberly Siegmund PhD Video
12:00 - 01:30 PM Lunch
01:30 - 03:00 PM Analysis of Whole Genome Transcriptome Sequencing Data Xiangqin Cui PhD Video
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 Video
10:15 - 10:30 AM BREAK
10:30 - 12:00 PM Whole Genome 3D Regulation Analysis Using Sequencing Shili Lin PhD Video
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
Section on Statistical Genetics, University of Alabama at Birmingham

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.