Ann‐Marie Baker

This paper develops a mathematical framework to infer cancer drug resistance dynamics from genetic lineage tracing and population size data, validated using experimental evolution and single-cell sequencing.

This paper introduces dATAC, a single-cell multi-omic method for simultaneous whole genome sequencing and chromatin accessibility profiling, revealing genome-epigenome coevolution in colorectal cancer.

This paper identifies long deletion signatures in repetitive regions as markers of microsatellite instability and develops a classifier to detect MSI in low-quality sequencing data.

This study identifies LOX-mediated cleavage of the vascular matrix as a mechanism driving glioblastoma infiltration and suggests targeting LOX as a therapeutic strategy.

This study shows that immune evasion in colorectal cancer follows a 'Big Bang' pattern, where early genetic and epigenetic changes drive subsequent tumor-immune evolution.

The paper models tumor-immune dynamics in colorectal cancer progression, showing immune evasion enables transition from immune-hot adenomas to immune-cold carcinomas.