Anna Trigos

ATAClone identifies cancer clones and estimates copy numbers from scATAC-seq data, improving accuracy over existing methods.

This study shows SMAD4 loss reprograms translation to induce chromosomal instability, driving tumourigenesis, and identifies CDK11B-p58 as a key mediator.

This study shows that 2D spatial analysis of tissues often leads to spurious associations and misrepresentation of 3D biological patterns.

The paper shows cancer disrupts gene regulatory networks by altering co-expression between genes of unicellular and multicellular origins, with changes more pronounced in advanced tumors.

SPIAT is an R package designed for spatial analysis of cells in tissues, offering tools for data processing, visualization, and analysis of spatially resolved single-cell data.