Mikaela Cashman

This study shows that filtering genomes based on coherent genotype-phenotype relationships improves cross-dataset prediction of microbial carbon utilisation, outperforming larger but less coherent datasets.

The KBase Research Agent automates genome analysis workflows, producing reproducible results and annotated genomes without human intervention.

RWRtoolkit enables multi-omic network analysis using random walks on multiplex networks across any species, providing tools for topological analysis and statistical evaluation.

MENTOR is a network-based algorithm that partitions gene sets into functions and identifies biological functions in Populus trichocarpa associated with microbial abundance using supervised and unsupervised learning.

The paper develops a molecular communication model integrating metabolic modeling and information theory to analyze how environmental perturbations affect cellular metabolism.

This paper examines the impact of application parameters on bioinformatics tools and proposes a methodology to systematically explore these parameters across different tools and scientific inquiries.

The paper identifies high-resolution environmental zones and predicts longitudinal climatic processes using vector comparison and network analysis methods.

This study relaxes GWAS significance thresholds and uses GRIN to identify additional genes linked to suicidal behavior, which replicate across cohorts and show stronger biological connections.