BugSigDB: Accelerating Human Microbiome Research
Ludwig Geistlinger, Ph.D., Senior Computational Biologist for the Center for Computational Biomedicine, Harvard Medical School, gave a short talk at the BioConductor Conference 2022. Geistlinger’s presentation covered BugSigDB: Accelerating Human Microbiome Research By Systematic Comparison To Published Microbial Signatures.
Geistlinger began the presentation by giving an introduction to BugSigDB, a manually curated database of microbial signatures from published differential abundance studies, providing standardized data on geography, health outcomes, host body sites, and experimental, epidemiological, and statistical methods using controlled vocabulary. Geistlinger then continued on to give an overview and more information on the architecture of the BugSigDB package. He then shared more about the analysis done at their lab and the methods of analysis used. Geistlinger concludes the presentation by sharing the results for datasets and two other examples and resources.
Main Sections
0:40 Introduction
4:29 BugSigDB - curated database of microbiome signatures
5:45 BugSigDB package
7:29 Bug set enrichment analysis of gut dysbiosis in colorectal cancer
8:45 “Spike-in” signatures (CRC datasets)
9:33 Assessing methods for microbe set enrichment analysis
10:19 Results for datasets example
13:30 Closing and thank you
More Resources
Bioconductor Conference Site: https://bioc2022.bioconductor.org/
BioC2022 Github: https://github.com/Bioconductor/BioC2022
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