A. Sottoriva

Heterogeneity and evolution of DNA mutation rates in microsatellite stable colorectal cancer

The paper measures mutation rates in microsatellite stable colorectal cancers and finds they vary between tumors and increase during metastasis.

Epigenome and early selection determine the tumour-immune evolutionary trajectory of colorectal cancer

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.

Epigenetic heritability of cell plasticity drives cancer drug resistance through one-to-many genotype to phenotype mapping

The paper shows how epigenetic heritability of cell plasticity contributes to cancer drug resistance through a one-to-many genotype-to-phenotype mapping.

Phenotypic plasticity and genetic control in colorectal cancer evolution

This study investigates phenotypic plasticity and genetic control in colorectal cancer by analyzing gene expression and genetic variation across multiple tumor regions.

The co-evolution of the genome and epigenome in colorectal cancer

This study examines the co-evolution of genome and epigenome in colorectal cancer using single-clone spatial multi-omic profiling, revealing epigenetic changes and their impact on mutation accumulation.

Mutation Rate Evolution Drives Immune Escape In Mismatch Repair-Deficient Cancer

The paper shows that mutation rate adaptation in MMRd cancers drives immune escape by modulating neoantigen diversity and subclonal mutation rates.

Quantification of spatial subclonal interactions enhancing the invasive phenotype of paediatric glioma

This study quantifies spatial subclonal interactions in paediatric gliomas that enhance invasive phenotype, distinguishing true interactions from spatial confounding factors.

Loss of the H4 lysine methyltransferase KMT5B drives tumorigenic phenotypes by depleting H3K27me3 at loci otherwise retained in H3K27M mutant DIPG cells

The paper shows that loss of KMT5B in DIPG cells depletes retained H3K27me3 loci, leading to transcriptional changes that promote tumorigenesis.

Assessment of the evolutionary consequence of putative driver mutations in colorectal cancer with spatial multiomic data

This study uses spatial multiomic data to assess the evolutionary impact of putative driver mutations in colorectal cancer, identifying both genetic and non-genetic factors influencing subclonal expansion.

Evolutionary dynamics of neoantigens in growing tumours

This study develops a mathematical model of neoantigen evolution in tumors and validates it with colorectal cancer data, showing how negative selection shapes tumor immunogenotype and clonality.

Niche engineering drives early passage through an immune bottleneck in progression to colorectal cancer

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

Exploiting evolutionary herding to control drug resistance in cancer

This paper demonstrates evolutionary herding in non-small cell lung cancer to control drug resistance by shifting clonal composition and inducing collateral sensitivity.

Measuring single cell divisions in human cancers from multi-region sequencing data

This study measures single-cell division rates and survival in human cancers using multi-region sequencing data, revealing per-cell mutation and survival rates across different cancer types and healthy tissues.

Variation of mutational burden in healthy human tissues suggests non-random strand segregation and allows measuring somatic mutation rates

The paper estimates non-random DNA strand segregation and somatic mutation rates in healthy human tissues using deep sequencing data.

Quantification of subclonal selection in cancer from bulk sequencing data

This study quantifies subclonal selection in cancer using bulk sequencing data to determine mutation rates, selective advantages, and subclone emergence times in gastric and lung cancers.