M. K. Prakash

Estimation of Interaction and Growth Parameters to Develop a Computational Model for Gut Bacteria

This paper develops a computational model to estimate interaction and growth parameters of gut bacteria using cross-sectional data without longitudinal followup.

Interpretation of Predictions in Drug-Gut Bacteria Interactions Using Machine Learning

This study uses interpretable machine learning to identify key physicochemical features of drugs that influence their interactions with gut bacteria, finding that positively charged drugs inhibit bacterial growth while negatively charged drugs are more likely to be metabolized.

Disentangling the contribution of each descriptive characteristic of every single mutation to its functional effects

The paper uses interpretable AI to analyze mutational effects and identifies universal trends in how mutation descriptors influence functional outcomes.

An integrative model finds comparable contributions to drug resistance from poor drug adherence and adapting bacteria

The paper develops an integrative model to assess contributions of drug adherence and bacterial adaptation to antibiotic resistance in a population setting.

Slow and ad hoc: Unravelling the two features characterizing the development of bacterial resistance to membrane active peptides

The paper models bacterial resistance development to antimicrobial peptides, finding that lysylation slows resistance and that membrane composition reverses under drug-free conditions.

One drug multiple targets: An approach to predict drug efficacies on bacterial strains differing in membrane composition

The paper develops a model to predict daptomycin activity against Streptococcus aureus strains with varying membrane compositions, suggesting interaction with the inner membrane.

Exploring the context of diacidic motif D-E as a signal for unconventional protein secretion in eukaryotic proteins

The paper investigates whether the diacidic motif DE and its context can serve as a signal for unconventional protein secretion in eukaryotic proteins.