2014-15: Bioinformatics: Discovering Patterns in Human Microbiome Data (HMD): March 16-18, 2015

Workshop Information

Program: 2014-15 Program on Beyond Bioinformatics: Statistical and Mathematical Challenges (Bioinformatics)

When: March 16, 2015 - 8:30am - March 18, 2015 - 12:30pm

Workshop Organizers:

Alexander Alekseyenko

Registration for this workshop is currently closed.

This workshop was held at SAMSI in Research Triangle Park, N.C.

Schedule
Participant List
Speaker Titles and Abstracts
Posters

Description:

The human microbiome is the community of microorganisms that reside in different body habitats. Host-microbiome interactions play an important but poorly-characterized role in health. Advances in high-throughput technologies including next-generation sequencing and mass spectroscopy allow us to query the population of micro-organisms and observe the interactions in greater detail. The effect of choices in measurement protocols, the multivariate longitudinal nature of data, and combining measurements on different scales pose difficulties in discovering and conﬁrming significant relationships in the human microbiome.

The aim of this workshop was to create a forum for ideas for overcoming current and future challenges in the analysis of human microbiome data. In this workshop, participants learned how metagenomic (sequence-based) and metabolomic (mass spectroscopy-based) data are generated and the implications for analysis. Gaps in the current state-of-the-art methods were highlighted, particularly with respect to the analysis of multivariate longitudinal data and the use of statistical experimental design to assess bias. Participants assembled into research groups and were asked to formulate plans to address the deﬁciencies of current methods.

Participants could optionally submit an abstract for a short presentation or poster. A small subset of the submitted abstracts were selected for short presentations at the workshop.

SAMSI Directorate Liaison: Sujit Ghosh

If you have any questions please send email to [email protected]

Schedule

Monday, March 16, 2015
at SAMSI

8:00-8:30 a.m.	Registration
8:30-8:45	Opening Remarks: Snehalata Huzurbazar, University of Wyoming and Paul Brooks, Virginia Commonwealth University
8:45-9:15	SAMSI Working Group Summary and Workshop Introduction
9:15-10:15	Susan Holmes, Stanford University Generalizing PCA to Accommodate for the Multiple Sources of Data and Constraints in the Human Microbiome
10:15-10:30	Break
10:30-11:30	Vanni Bucci, University of Massachusetts Dartmouth Predictive Models of Microbiome Dynamics: Designing Bacterial Cocktails to Ameliorate Enteric Infection and to Stimulate Immune Systems
11:30-12:00	Breakout Meeting Discussion
12:00-1:30	Lunch
1:30-3:30	Breakout Research Meetings Groundtruthing 16S experiments - Room 150 Interaction inference in longitudinal data - Room 203 Predicting community state type changes - Room 259 Sparse multiway data integration - Room 219
3:30-4:00	Breakout Meeting Reports
4:00-5:30	Short Talk Session
	Giseon Heo, University of Alberta Comparing Clostridium Difficile Infected Patients before and after a Treatment Using Loops in DNA Sequences
	Michelle Wright, Virginia Commonwealth University Alpha Diversity of the Vaginal Microbiome Clusters within Families: a Twin Study
	Duncan Wadsworth, Rice University Bayesian Variable Selection for Multinomial-Dirichlet Regression with an Application to Microbiome Data Integration
	Ekaterina Smirnova, University of Wyoming Vaginal Microbiome: Comparison of Bacterial Vaginosis 16S rRNA Taxa Composition
5:30-7:30	Poster Session and Reception SAMSI will provide poster presentation boards and tape. The board dimensions are 4 ft. wide by 3 ft. high. They are tri-fold with each side being 1 ft. wide and the center 2 ft. wide. Please make sure your poster fits the board. The boards can accommodate up to 16 pages of paper measuring 8.5 inches by 11 inches.

Tuesday, March 17, 2015
at SAMSI

8:30-8:45 a.m.	Registration and Announcements: Paul Brooks, Virginia Commonwealth University
9:00-10:00	Hector Corrada Brava, University of Maryland Statistical and Visualization Methods for Metagenomic Analysis**
10:00-12:00	Breakout Research Meetings Predicting community state type changes - Room 150 Sparse multiway data integration - Room 259 Additional groups - Room 219
12:00-1:30	Lunch
1:30-2:00	Breakout Meeting Reports
2:00-3:00	Shanaka Wijesinghe, Virginia Commonwealth University
3:00-3:30	Break
3:30-5:00	Short Talk Session
	Brandie D. Wagner, University of Colorado Analysis of Longitudinal Microbiota Data
	Gholamali Rahnavard, Harvard School of Public Health High-Sensitivity Pattern Discovery in High-Dimensional Heterogeneous Datasets
	Ayshwarya Subramanian, Harvard School of Public Health Multivariate Association of Microbial Communities with Rich Metadata in High-Dimensional Studies

Wednesday, March 18, 2015
at SAMSI

8:45-9:00 a.m.	Registration and Announcements: Paul Brooks, Virginia Commonwealth University
9:00-10:00	Bill Shannon, Washington University in St. Louis Microbiome Power/Sample Size Calculations (plus a bit of formal hypothesis testing)
10:00-12:00	Breakout Research Meetings Interaction inference in longitudinal data - Room 150 Analyzing human microbiome data - Room 259 Additional groups - Room 219
12:00-1:00	Breakout Meeting Reports and Discussion
1:00	Adjourn and Box Lunch