4th Short Course on Next-Generation Sequencing: Technology and Statistical Methods
| Held On: | Mon 12/15/14 – Thurs 12/18/14 |
| Location: | University of Alabama at Birmingham eritage Hall – Lecture Room 104 1401 University Blvd. Birmingham, AL 35233 http://www.uab.edu/map/hhb |
| Lodging: | Doubletree Hotel by Hilton 808 South 20th Street Birmingham, AL 35205 (205) 933-9000; fax: (205) 933-0920 SpringHill Suites by Marriott 2024 4th Avenue South Birmingham, AL 35233 (205) 322-8600; fax: (205) 322-9915 Residence Inn by Marriott-UAB 821 20th Street South Birmingham, AL 35205 (205) 731-9595; fax: (205) 731-9596 |
Overview
Faculty
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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: Agenda
**NOTE: You will need Microsoft Silverlight to view videos.
Mon 12/15/14 – UAB in Birmingham, AL
| Time | Topic | Speaker | Video |
| 08:00 – 09:15 AM | Registration – Heritage Hall, Room 125 | Derry Crawford, MSHA | |
| 09:15 – 09:30 AM | Introductory Remarks | Hemant Tiwari, PhD – UAB | |
| 09:30 – 10:30 AM | Technical Overview of NGS (Platforms; chemistry; library construction) | Shawn Levy, PhD – HudsonAlpha Institute of Biotechnology |  |
| 10:30 – 10:45 AM | Discussion | Shawn Levy, PhD | |
| 10:45 – 11:00 AM | BREAK | ||
| 11:00 – 12:00 PM | Next Generation Sequencing in Methylation Studies | Devin Absher, PhD – HudsonAlpha | |
| 12:00 – 12:15 PM | Discussion | Devin Absher, PhD | |
| 12:15 – 01:30 PM | LUNCH BREAK | ||
| 01:30 – 02:30 PM | Predicting Causal Variation | Greg Cooper, PhD – HudsonAlpha | |
| 02:30 – 02:45PM | Discussion | Greg Cooper, PhD | |
| 02:45 – 03:00PM | BREAK | ||
| 03:00 – 04:00 PM | StatGenLab, a virtual machine for genetic data analysis | Jelai Wang, BSc – Wang Scientific Software Solutions, LLC | |
| 04:00- 06:00 PM | Software Demonstration & Hands-on Computing (R & Bioinformatics File Formats) | Xiangqin Cui, PhD – UAB | |
| 07:00- 09:00 PM | Dinner/Social @ The Edge of Chaos – 4th Floor, Lister Hill Library | Participants & Faculty | |
Tue 12/16/14 – UAB in Birmingham, AL
| Time | Topic | Speaker | Video |
| 09:30 – 10:30 AM | Functional Genomics: Identifying and characterizing cis-regulatory sequences | Dan Savic, PhD – HudsonAlpha | |
| 10:30 – 10:45 AM | Discussion | Dan Savic, PhD | |
| 10:45 – 11:00 AM | BREAK | ||
| 11:00 – 12:00 PM | Variant Calling & Assembly NGS Data | Degui Zhi, PhD – UAB | |
| 12:00 – 12:15 AM | Discussion | Degui Zhi, PhD | |
| 12:15 – 01:30 PM | LUNCH BREAK | ||
| 01:30- 02:30 PM | Rare Variants Analysis | Michael Wu, PhD – Fred Hutchinson Cancer Research Center | |
| 02:30- 02:45 PM | Discussion | Michael Wu, PhD | |
| 02:45 – 03:00 PM | BREAK | ||
| 03:00- 06:00 PM | Software Demonstration & Hands-on Computing (SKAT & NGS, Variant Calling) | Michael Wu, PhD; Vinodh Srini, MS – UAB | |
Wed 12/17/14 – UAB in Birmingham, AL
| Time | Topic | Speaker | Video |
| 09:30 – 10:30 AM | Transcriptome Analysis Using NGS | Xiangqin Cui, PhD – UAB | |
| 10:30 – 10:45 AM | Discussion | Xiangqin Cui, PhD | |
| 10:45 – 11:00 AM | BREAK | ||
| 11:00 – 12:00 PM | ChiP-Seq Data Analysis | Hao Wu, PhD – Emory University | |
| 12:00 – 12:15AM | Discussion | Hao Wu, PhD | |
| 12:15 – 01:30 PM | LUNCH BREAK | ||
| 01:30 – 02:30 PM | Analysis of whole-genome bisulfite sequencing data | Karen Conneely, PhD – Emory University | |
| 02:30 – 02:45 PM | Discussion | Karen Conneely, PhD | |
| 02:45 – 03:00 PM | BREAK | ||
| 03:00- 06:00 PM | Software Demonstration & Hands-on Computing (ChIP-Seq, BSmooth and DSS) | Hao Wu, PhD; Karen Conneely, PhD | |
Thu 12/18/14 – UAB in Birmingham, AL
| Time | Topic | Speaker | Video |
| 09:30 – 10:30 AM | Computational Methods for Cancer Genome Interpretation | Emidio Capriotti, PhD – UAB | |
| 10:30 – 10:45 AM | Discussion | Emidio Capriotti, PhD | |
| 10:45 – 11:00 AM | BREAK | ||
| 11:00 – 12:00 PM | Statistical Methods for NGS Data | Nicholas Schork, PhD – J. Craig Venter Institute | |
| 12:00 – 12:15 PM | Discussion | Nicholas Schork, PhD | |
| 12:15- 01:30 PM | LUNCH BREAK | ||
| 01:30 – 02:30 PM | 1000 Genomes & Beyond | Fuli Yu, PhD – Baylor College of Medicine | |
| 02:30 – 02:45 PM | Discussion | Fuli Yu, PhD | |
| 02:45 – 03:00 PM | BREAK | ||
| 03:00 – 04:00 PM | Software Demonstration & Hands-on Computing (RNA-Seq) | Degui Zhi, PhD | |
| 04:00 PM | Adjourn | ||
UAB Faculty:
- Emidio Capriotti, Ph.D.
- David Crossman, Ph.D.
- Xiangqin Cui, Ph.D.
- Hemant K. Tiwari, Ph.D.
- Degui Zhi, Ph.D.
External Faculty:
- Devin Absher, Ph.D. – HudsonAlpha Institute
- Karen Conneely, Ph.D. – Emory University
- Greg Cooper, Ph.D. – HudsonAlpha Institute
- Shawn Levy, Ph.D. – HudsonAlpha Institute
- Dan Savic, Ph.D. – HudsonAlpha Institute
- Nicholas Schork, Ph.D. – J. Craig Venter Institute
- Michael Wu, Ph.D. – Fred Hutchinson Cancer Research Center
- Hao Wu, Ph.D. – Emory University
- Fuli Yu, Ph.D. – Baylor College of Medicine
Full List of Rotating Faculty can be found by Click here.
Apply
Application deadline:
Applications for 2014 NHGRI Short Course on Next Generation Sequencing will be accepted till Saturday November 15, 2014.
How to Apply
To apply, please perform the following tasks either via our website or by sending materials to statgenetics@uab.edu:
- Complete this application form (PDF or Word). Only fully completed application forms will be considered.
- Forward your current curriculum vitae.
- One page personal statement, explaining: why you are interested in attending this course, & how the course will aid your professional development, research, etc. Be sure to provide details of your background in Genetics, Statistics, etc.
- Computing background such as knowledge of R and UNIX commands is highly encouraged.
Attendance is limited. Please apply prior to Sat 11/15/2014. Accepted applicants will be notified by Fri 11/21/2014, and applicants should make arrangements for payment of the registration fee by December 12th.
Women, members of underrepresented minority groups, and individuals with disabilities are strongly encouraged to apply.
Upon Acceptance, fee:
$500 – academic, government, and non-profit organizations
$2,500 – for-profit organizations
Acceptance includes course tuition, syllabus, and refreshment breaks. Fee will be payable upon acceptance into the course.
Email your application, CV/resumes, and personal statement to: statgenetics@uab.edu
For more information, contact:
Derry Crawford, MSHA
Program Manager
UAB SOPH Department of Biostatistics
Section on Statistical Genetics
1665 Univ. Blvd, RPHB 414
Birmingham, AL 35294-0022
205.975.9298 T
205.975.2541 F
derry@uab.edu
Contact Information:
Logistics: Derry Crawford
Department of Biostatistics
1665 University Blvd, RPHB 414
University of Alabama at Birmingham
Birmingham, AL 35294-0022
Phone: (205) 975-9298
Email: Statgenetics@uab.edu
Scientific: Hemant K Tiwari, PhD
Department of Biostatistics
1665 University Blvd, 420C
University of Alabama at Birmingham
Birmingham, AL 35294-0022
Phone: (205) 934-4907
Email: htiwari@uab.edu
Sponsors:
National Human Genome Research Institute
UAB Department of Biostatistics
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.
