Cuong Cao Dang

Estimating amino acid substitution models from genome datasets: A simulation study on the performance of estimated models

This study simulates genome datasets to evaluate how well maximum likelihood methods estimate amino acid substitution models and their performance in building ML trees.

nQMaker: estimating time non-reversible amino acid substitution models

nQMaker estimates time non-reversible amino acid substitution models and rooted phylogenetic trees from protein sequence alignments, showing improved model fit across diverse datasets.

A cancer pharmacogenomic screen powering crowd-sourced advancement of drug combination prediction

The paper presents a large-scale cancer pharmacogenomic screen with 11,576 experiments on 910 drug combinations across 85 cancer cell lines, enabling crowd-sourced prediction of synergistic drug pairs and biomarkers.

Unearthing new genomic markers of drug response by improved measurement of discriminative power

The paper introduces a non-parametric method to measure discriminative power of drug-gene associations and identifies 128 new genomic markers across 61% of analyzed drugs.

Systematic assessment of multi-gene predictors of pan-cancer cell line sensitivity to drugs exploiting gene expression data

The paper compares single-gene and multi-gene predictors of drug sensitivity in cancer cell lines using gene expression data and finds that multi-gene models perform better overall, though single-gene markers have higher precision.