B. Werner

The dynamic fitness landscape of ageing haematopoiesis through clonal competition

This study models clonal competition in ageing haematopoiesis, showing that fitness landscapes evolve with age and predict high-risk clones for patient stratification.

Precise age estimation in clonal species using a somatic genetic clock

This paper develops a somatic genetic clock to estimate age in clonal species by analyzing fixed somatic genetic variation, demonstrating its application in Zostera marina and revealing genet ages up to 1,403 years.

Mutation divergence over space in tumour expansion

This study quantifies how mutation divergence varies with sampling distance and tumour expansion modes using simulations, showing that mutation rate inference is less accurate with smaller sampling sizes and slower expansion.

Clonal fitness decline in somatic differentiation hierarchies

The paper shows clonal fitness declines over time in somatic differentiation hierarchies, observable in human haematopoiesis and CLL, with a 1/time relationship and equilibrium fitness.

Coordinated inheritance of extrachromosomal DNA species in human cancer cells

This study shows that multiple extrachromosomal DNA species are coordinately inherited in cancer cells through mitotic co-segregation, enabling oncogene cooperation and guiding therapeutic strategies.

Measures of genetic diversification in somatic tissues at bulk and single cell resolution

The paper uses bulk and single-cell sequencing data to analyze genetic heterogeneity in tissues, revealing insights into stem cell dynamics and mutation rates.

Evolutionary crowdsourcing: alignment of fitness landscapes allows cross-species adaptation of a horizontally transferred gene

The paper examines how horizontal gene transfer affects gene evolution across species by aligning fitness landscapes and shows that adaptive evolution in one species can translate to another.

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.

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.

Principles of ecDNA random inheritance drive rapid genome change and therapy resistance in human cancers

Identification of Fluoxetine as a direct NLRP3 inhibitor to treat atrophic macular degeneration

This paper identifies fluoxetine as a potential repurposed drug for dry AMD by showing it inhibits NLRP3-ASC inflammasome activation and reduces RPE degeneration in mice, supported by epidemiological data.

Elucidating the mechanism of cyclodextrins in the treatment of Niemann-Pick Disease Type C using crosslinked 2-hydroxypropyl-β-cyclodextrin

This study investigates the mechanism of crosslinked 2-hydroxypropyl-β-cyclodextrin (HPβCD) in treating Niemann-Pick Disease Type C and evaluates its in vivo efficacy with MRIg-FUS to enhance brain penetration.

Host-induced gene silencing involves Arabidopsis ESCRT-III pathway for the transfer of dsRNA-derived siRNA

This study identifies the Arabidopsis ESCRT-III pathway as essential for transferring dsRNA-derived siRNAs between host and fungal cells during host-induced gene silencing.

Stochastic dynamics of extra-chromosomal DNA

This study develops a theoretical framework to model the evolutionary dynamics of extra-chromosomal DNA in cancer, showing that random segregation can lead to complex dynamics even under strong selection.

Study on the efficacy of dsRNAs with increasing length in RNAi-based silencing of the Fusarium CYP51 genes

This study tests the effect of dsRNA length on RNAi-based silencing of Fusarium CYP51 genes in HIGS and SIGS approaches, finding no correlation in HIGS but a significant correlation in SIGS.

RNA-spray-mediated silencing of Fusarium graminearum AGO and DCL genes improve barley disease resistance

This study compares dsRNA design methods for silencing fungal genes in barley, finding manual design outperforms computational tools and suggests cross-kingdom RNA silencing.

How many samples are needed to infer truly clonal mutations from heterogenous tumours?

This study determines how many samples are needed to accurately infer clonal mutations in heterogeneous tumors by optimizing sampling strategies.

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.

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.

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.

Replicative cellular age distributions in compartmentalised tissues

This study examines how progenitor compartments with different self-renewal and differentiation capacities affect replicative cellular age distributions and cancer risk.

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.