2014-15: Bioinformatics: Discovering Patterns in Human Microbiome Data (HMD): March 16-18, 2015
Workshop Information
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
|
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
|
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
|
12:00-1:00 | Breakout Meeting Reports and Discussion |
1:00 | Adjourn and Box Lunch |