Research Interests

Marcin Joachimiak is a computational biologist dedicated to the integration of microbial biology with machine learning and semantic technologies. At the forefront of my research interests is the development of machine learning techniques, including graph learning and biclustering, to unravel the complex relationships in microbiology and metagenome data. Additionally, by leveraging semantic technologies and ontologies, I aim to enhance machine learning, data science, and knowledge graph construction for microbes and microbiomes – a more nuanced and dynamic framework for studying microbial life. As an example, I am developing advanced models for growth prediction and culturing medium optimization using knowledge graphs and graph learning, including tailoring to the unique environment characteristics of different microbiomes. This research has the potential to improve our ability to characterize microbes and develop new utilitarian purposes such as in biomanufacturing, environmental remediation, and human health. Via synthesis of these computational methods and harmonized metagenome and microbiological data, new possibilities emerge in managing and manipulating microbes and microbiomes.

Selected Publications

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