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Statistical challenges posed by heterogeneous data from immunology and microbiology

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  • UserProfessor Susan Holmes from Stanford University
  • ClockMonday 15 June 2020, 10:00-11:15
  • HouseZOOM (live).

If you have a question about this talk, please contact Anna Toporska .

Please email anna.toporska@cruk.cam.ac.uk by Friday 12th June to receive a ZOOM registration link

The human microbiome is a complex assembly of bacteria that are sensitive to many perturbations. Subject to subject differences are the primary source of variation. Thus carefully designed perturbation experiments using longitudinal sampling provide the best approach for discovering the main drivers of resilience and recovery. Prof Holmes and her collaborators have developed specific tools for studying the vaginal, intestinal and oral microbiomes under different perturbations (pregnancy, hypo-salivation inducing medications and antibiotics are some examples). In her talk, prof Holmes will show how the tools use hierarchical nonparametric geometric and network-based methods. Challenges that have been addressed include information leaks, the integration of phylogenetic information, testing in the presence of longitudinal dependencies and uncertainty quantification. The methods enable the detection of changepoints, ecological gradients and their uncertainty quantification, as well as the integration of tree-aware multivariate representations. This contains joint work with Lan Huong Nguyen, Pratheepa Jeganathan, Claire Donnat, Sergio Bacallado, Ben Callahan, Julia Fukuyama, Christof Seiler, Kris Sankaran and David Relman’s Lab.

This talk is part of the Seminars on Quantitative Biology @ CRUK Cambridge Institute series.

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