Diego Mallo

PHYFUM reconstructs the evolutionary history of normal and pre-malignant tissues using methylation data, revealing early gland divergence in the gut and later divergence in the endometrium.

This paper argues for integrating phylogenetic comparative methods into evolutionary medicine, using comparative oncology to show how these methods can reveal evolutionary patterns in disease traits.

This study reconstructs DCIS growth dynamics using somatic mutation topography, revealing a multiclonal, branching morphogenesis-like pattern consistent with a new Comet model of tumorigenesis.

The paper uses genomic profiling to show that some invasive breast cancers are clonally unrelated to their preceding DCIS, suggesting DCIS may act as both a precursor and independent risk factor.

This paper develops and validates a new bioinformatic algorithm to accurately identify somatic SNVs from small DNA amounts in FFPE breast cancer samples, showing improved performance over existing methods.

The paper introduces CryptSim, a simulator of crypt evolution in Barrett’s esophagus, showing that interactions between neighboring crypts are crucial in carcinogenesis.