Location
This workshop was held at SAMSI in Research Triangle Park, N.C.
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.
Questions: email [email protected]
Schedule and Supporting Media
Participant List
Speaker Titles and Abstracts
Posters
Monday, March 16, 2015
at SAMSI
| Time | Description | Speaker | Slides | Videos |
|---|---|---|---|---|
| 8:00-8:30 | Registration | |||
| 8:30-8:45 | Opening Remarks | Snehalata Huzurbazar, University of Wyoming Paul Brooks, Virginia Commonwealth University |
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| 8:45-9:15 | SAMSI Working Group Summary and Workshop Introduction | |||
| 9:15-10:15 | Generalizing PCA to Accommodate for the Multiple Sources of Data and Constraints in the Human Microbiome | Susan Holmes, Stanford University | ||
| 10:15-10:30 | Break | |||
| 10:30-11:30 | Predictive Models of Microbiome Dynamics: Designing Bacterial Cocktails to Ameliorate Enteric Infection and to Stimulate Immune Systems | Vanni Bucci, University of Massachusetts Dartmouth | ||
| 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 |
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| 3:30-4:00 | Breakout Meeting Reports | |||
| 4:00-5:30 | Short Talk Session | |||
| Comparing Clostridium Difficile Infected Patients before and after a Treatment Using Loops in DNA Sequences | Giseon Heo, University of Alberta | |||
| Alpha Diversity of the Vaginal Microbiome Clusters within Families: a Twin Study | Michelle Wright, Virginia Commonwealth University | |||
| Bayesian Variable Selection for Multinomial-Dirichlet Regression with an Application to Microbiome Data Integration | Duncan Wadsworth, Rice University | |||
| Vaginal Microbiome: Comparison of Bacterial Vaginosis 16S rRNA Taxa Composition | Ekaterina Smirnova, University of Wyoming | |||
| 5:30-7:30 | Poster Session and Reception |
Tuesday, March 17, 2015
at SAMSI
| Time | Description | Speaker | Slides | Videos |
|---|---|---|---|---|
| 8:30-8:45 | Registration and Announcements | Paul Brooks, Virginia Commonwealth University | ||
| 9:00-10:00 | Statistical and Visualization Methods for Metagenomic Analysis | Hector Corrada Brava, University of Maryland | ||
| 10:00-12:00 | Breakout Research Meetings Predicting community state type changes – Room 150 Sparse multiway data integration – Room 259 Additional groups – Room 219 |
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| 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 | |||
| Analysis of Longitudinal Microbiota Data | Brandie D. Wagner, University of Colorado | |||
| High-Sensitivity Pattern Discovery in High-Dimensional Heterogeneous Datasets | Gholamali Rahnavard, Harvard School of Public Health | |||
| Multivariate Association of Microbial Communities with Rich Metadata in High-Dimensional Studies | Ayshwarya Subramanian, Harvard School of Public Health |
Wednesday, March 18, 2015
at SAMSI
| Time | Description | Speaker | Slides | Videos |
|---|---|---|---|---|
| 8:45-9:00 | Registration and Announcements: | Paul Brooks, Virginia Commonwealth University | ||
| 9:00-10:00 | Microbiome Power/Sample Size Calculations (plus a bit of formal hypothesis testing) | Bill Shannon, Washington University in St. Louis | ||
| 10:00-12:00 | Breakout Research Meetings Interaction inference in longitudinal data – Room 150 Analyzing human microbiome data – Room 259 Additional groups – Room 219 |
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| 12:00-1:00 | Breakout Meeting Reports and Discussion | |||
| 1:00 | Adjourn and Box Lunch |