2014-15: Bioinformatics: Opening Workshop: September 8-12, 2014

Location

The workshop was held at the North Carolina Biotechnology Center, a short walk from SAMSI.

Description

The purpose of the workshop was to introduce the topics of the program and to identify research themes that will be developed in working groups over the length of the program.

Questions: email bioinformatics@samsi.info


Schedule and Supporting Media

Participant List
Speakers Titles/Abstracts
Poster Titles
Pictures

Monday September 8, 2014
Hamner Conference Center

Time Description Speaker Slides Videos
8:00-8:45 Registration
8:45-9:00 Introduction and Welcome Richard Smith, SAMSI
General Overview Lectures Chair:
Katerina Kechris, University of Colorado-Denver
9:00-10:15 Wanted: Large Complex `Omic Data Seeking Quantitative Reasoning and Analysis Rebecca Doerge, Purdue University video
10:15-10:45 Break
10:45-12:15 High Dimensional Data Integration Susan Holmes, Stanford University pdf video
12:15-1:45 Lunch (Galleria)
1:45-3:00 Human Genome Analysis Mark Gerstein, Yale University pdf video
3:00-3:30 Break
3:30-4:45 Statistical and Mathematical Bioinformatics: Past, Present and Future (one person’s view) Terry Speed, UC-Berkeley, and Walter and Eliza Hall Institute of Medical Research (Australia) pdf video
4:45-5:00 Discussion
5:00-7:00 Poster Session and Reception

Tuesday, September 9, 2014
Hamner Conference Center

Time Description Speaker Slides Videos
8:45-9:00 Registration and Announcements
Evolutionary Bioinformatics Chair:
Jeff Thorne, North Carolina State University
9:00-9:45 Multispecies Coalescent and its use in Population Genetic Inference from Genomic Data Ziheng Yang, University College London pdf video
9:45-10:30 Species-Level Phylogenetic Inference using Large-Scale Sequence Data Laura Kubatko, Ohio State University pdf video
10:30-11:00 Break
11:00-11:45 Epistasis, Convergence, and the Evolutionary Stokes Shift David Pollack, University of Colorado-Denver pdf video
11:45-12:00 Discussion
12:00-1:15 Lunch (Galleria)
Epigenetics Chair:
Shili Lin , Ohio State University
1:15-2:00 Statistical Analysis of Illumina Human Methylation 450 Bead Arrays Kim Siegmund, University of Southern California pdf video
2:00-2:45 Statistical Analysis of Epigenomewide Data Kasper Hansen, Johns Hopkins University video
2:45-3:30 Bayesian Inference of Three-Dimensional Chromosomal Organization from Hi-C Data Jun Liu, Harvard University pdf video
3:30-3:45 Discussion
3:45-4:15 Break
4:15-5:15 Panel: “Role of the Mathematical Sciences in Bioinformatics Education” Moderator: Karin Dorman, Iowa State University
Claudia Neuhauser, University of Minnesota
Susmita Datta, University of Louisville
Curtis Huttenhower, Harvard University
pdf
pdf
pdf
video

Wednesday, September 10, 2014
Hamner Conference Center

Time Description Speaker Slides Videos
8:50-9:00 Announcements
Metagenomics Chair:
Alex Aleseyenko, New York University
9:00-9:45 Changing Paradigms of the Vaginal Microbiome in Health, Disease and Pregnancy Greg Buck, Virginia Commonwealth University video
9:45-10:30 Identifying Personal Microbiomes Using Metagenomic Codes Curtis Huttenhower, Harvard University pdf video
10:30-11:00 Break
11:00-11:45 Microbiome, Metagenomics and High Dimensional Composiitonal Data Analysis Hongzhe Li, University of Pennsylvania video
11:45-12:00 Discussion
12:00-1:15 Lunch (Galleria)
High-dimensional Data Integration Chair:
Dan Nettleton, Iowa State University
1:15-2:00 An Integrative Exploratory Analysis of –Omics Data from the ICGC Lung Cancer Data Susmita Datta, University of Louisville video
2:00-2:45 Bayesian Models for Integrative Genomics Marina Vannucci, Rice University pdf video
2:45-3:30 Bayesian Models for “Integromics” Veera Baladandayuthapani, University of Texas, MD Anderson Cancer Center video
3:30-3:45 Discussion
3:45-4:15 Break
4:15-5:15 Panel: “Practices for Reproducible Research in Bioinformatics” Moderator: Susan Holmes, Stanford University
Keith Baggerly, Univ of Texas, MD Anderson Cancer Center
Vincent Carey, Harvard University
Elizabeth Purdom, University of California-Berkeley
pdf
pdf
video

Thursday, September 11, 2014
Hamner Conference Center

Time Description Speaker Slides Videos
8:50-9:00 Announcements
High-dimensional Data Integration (continued) Chair:
David Dunson, Duke University
9:00-9:45 Joint Ranking of Micro-Rnas and Pathways from Matched Mirna and Mrna Data Jean Yang, University of Sydney pdf video
9:45-10:30 Kernel Machine Methods for Genomics Studies Debashis Ghosh, Universtity of Colorado Public Health video
10:30-10:45 Discussion
10:45-11:00 Break
11:00-12:00 Short Overview of Working Groups – working group leaders
12:00-1:30 Lunch (Galleria)
1:30-5:00 Working Group Formation and Initial Meetings

Friday, September 12, 2014
Hamner Conference Center

Time Description Speaker Slides Videos
9:00-12:00 Working Group Meetings
12:00-1:00 Lunch (Galleria)
1:00 Adjourn