Mukul Subodh Bansal

This study shows that selecting optimal bin sizes improves tumor cell phylogeny inference from low-coverage single-cell sequencing data.

DupLoss-2 improves species tree inference under gene duplication and loss by enhancing gene loss computation, outperforming existing methods on benchmark datasets.

This study evaluates four microbial phylogenomic methods on simulated and real data, finding that accounting for gene tree error improves species tree accuracy, though all methods face biases in complex datasets.

DICE-bar and DICE-star are distance-based methods for reconstructing single-cell tumor phylogenies from sCNA data, offering improved accuracy and speed over existing methods.

TreeFix-TP improves transmission phylogeny inference by correcting phylogenetic errors using intra-host diversity and host information, enhancing accuracy in outbreak analysis.

This paper introduces a phylogenetic reconciliation framework to model both additive and replacing horizontal gene transfers, evaluates its impact on traditional methods, and proposes a heuristic algorithm for DTRL reconciliation.