Laura Tomás

This study evaluates six methods for calling single-nucleotide variants from scRNA-seq data and finds that some methods provide phylogenetically informative genotype calls, with implications for understanding cancer progression.

The paper uses single-cell whole-genome sequencing and Bayesian phylodynamic modeling to show colorectal tumors often originate decades before diagnosis and expand rapidly in the last two years.

The paper examines genomic diversity within the MDA-MB-231 breast cancer cell line across sublines, identifying intraline heterogeneity driven by single nucleotide variants and copy number alterations.

This study compares genomic profiling of circulating tumor cells (CTCs) using three methods in metastatic colorectal cancer, finding differences in mutational burden and diversity estimates.

This study evaluates somatic variant calling methods on multiregional tumor data, finding that multisample approaches do not always outperform single-sample methods, with Mutect2 in multisample mode performing best under challenging conditions.