IMPARO: Inferring Microbial Interactions Through Parameter Optimisation

Microbial Interaction Networks (MINs) provide important information for understanding bacterial communities and can be inferred by examining microbial abundance profiles. We present IMPARO, a method for inferring microbial interactions through parameter optimisation that uses biologically meaningful models for both the abundance profile and the MIN. We demonstrate how multiple MINs could be inferred with similar reconstructed abundance profile accuracy, and successfully infer clear interactions in the gut microbiome which have been previously observed in in-vitro experiments.

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Recommended citation:

R. Vidanaarachchi, M. Shaw, S.-L. Tang and S. Halgamuge, “IMPARO: Inferring Microbial Interactions Through Parameter Optimisation,” BMC Molecular and Cell Biology, vol. 21, Suppl 1, pp. 34, 2020, doi: 10.1186/s12860-020-00269-y.

BibTeX

@article{vidanaarachchi2020imparo,
  title={IMPARO: inferring microbial interactions through parameter optimisation},
  author={Vidanaarachchi, Rajith and Shaw, Marnie and Tang, Sen-Lin and Halgamuge, Saman},
  journal={BMC Molecular and Cell Biology},
  volume={21},
  number={Suppl 1},
  pages={34},
  year={2020},
  publisher={BioMed Central London}
}