Catharine West

Whole-genome pre-amplification as a viable approach for genomic screening of FFPE-derived DNA samples

This study evaluates DLMDA for improving DNA yield from FFPE samples but finds it reduces CNA sensitivity.

Fractionated radiation alters the extracellular matrix produced by muscle-invasive bladder cancer cells

This study shows fractionated radiation changes the extracellular matrix (ECM) composition in muscle-invasive bladder cancer, with ECM-related genes linked to poor prognosis.

Hypoxia-induced extracellular matrix changes are conserved in cancer and directly impact radiotherapy benefit

The paper identifies hypoxia-induced ECM changes across cancers and shows they predict radiotherapy benefit.

From a genomic risk model to clinical trial implementation in a learning health system: the ProGRESS Study

The paper develops a polygenic risk model for prostate cancer using VA data and validates it in external cohorts, showing its clinical utility in risk stratification.

Prostate cancer risk stratification improved across multiple ancestries with new polygenic hazard score

The paper improves prostate cancer risk stratification across multiple ancestries using a new polygenic hazard score with additional SNPs, showing higher hazard ratios and positive predictive value for clinically significant prostate cancer.

Additional SNPs improve the performance of a polygenic hazard score for prostate cancer

This study improves a polygenic hazard score for prostate cancer by adding 120 SNPs, enhancing hazard ratios but not positive predictive value of PSA testing.

Large-scale transcriptome-wide association study identifies new prostate cancer risk regions

This study integrates a large prostate cancer GWAS with gene expression data to identify 235 genes associated with risk, prioritizing causal genes through Bayesian credible sets.

sigQC: A procedural approach for standardising the evaluation of gene signatures

This paper introduces sigQC, an R package that standardizes gene signature quality control, demonstrating its application in evaluating signatures on cancer gene expression data.