J. E. Wilkinson

Highly accurate metagenome-assembled genomes from human gut microbiota using long-read assembly, binning, and consolidation methods

This study improves metagenome-assembled genomes from human gut microbiota using long-read sequencing and novel assembly methods, yielding more high-quality MAGs and uncovering uncultured diversity.

Metastatic site influences driver gene function in pancreatic cancer

This study shows that metastatic site influences the function of driver genes like SMAD4 in pancreatic cancer, with organ-specific epigenetic states affecting tumor growth.

Somatic mouse models of gastric cancer reveal genotype-specific features of metastatic disease

This study develops somatic mouse models of gastric cancer that replicate human disease subtypes and reveal genotype-specific metastatic patterns and immune interactions.

CRISPR-induced exon skipping of β-catenin reveals tumorigenic mutants driving distinct subtypes of liver cancer

This study shows CRISPR/Cas9 can induce exon skipping in β-catenin, creating gain-of-function mutations that drive distinct liver cancer subtypes in mice and are found in human HCC patients.

An epigenetic memory of inflammation controls context-dependent lineage plasticity in the pancreas

This study shows that inflammation leaves an epigenetic memory in pancreatic acinar cells, affecting their lineage plasticity and tumorigenesis in response to subsequent stress.

Patient-derived triple negative breast cancer organoids provide robust model systems that recapitulate tumor intrinsic characteristics

This study develops and characterizes patient-derived TNBC organoids that recapitulate tumor properties and identify key signaling pathways involved in cancer progression.

The long non-coding RNA MaTAR20 promotes mammary tumor growth by regulating angiogenesis pathways

This study identifies MaTAR20 as a lncRNA that promotes mammary tumor growth by regulating angiogenesis pathways, specifically through its interaction with Tnfsf15.

{-}Multivariable Association Discovery in Population-scale Meta-omics Studies

This paper introduces MaAsLin 2, a method for analyzing multivariable associations in microbial multi-omics data, and applies it to reveal new insights into inflammatory bowel disease.

miR-200 deficiency promotes lung cancer metastasis by activating cancer-associated fibroblasts

This study shows that miR-200 deficiency in lung cancer cells promotes metastasis by activating cancer-associated fibroblasts through Notch signaling.

ASO-based PKM Splice-switching Therapy Inhibits Hepatocellular Carcinoma Cell Growth

This paper demonstrates that ASO-based PKM splice-switching therapy inhibits HCC cell growth by converting PKM2 to PKM1, altering glucose metabolism and reducing tumorigenesis.

Cancer cell CCR2 orchestrates suppression of the adaptive immune response

This study shows that CCR2 in cancer cells suppresses immune response by reducing CD103+ dendritic cell recruitment and altering immune cell infiltration and activation.

An in vivo KRAS allelic series reveals distinct phenotypes of common oncogenic variants

The paper creates KRAS mutant mouse models to study how different oncogenic variants affect tumor development and therapy response in vivo.

DNAJB1-PRKACA fusion kinase interacts with β-catenin and liver regenerative response to drive fibrolamellar hepatocellular carcinoma

This study shows that the DNAJB1-PRKACA fusion kinase drives fibrolamellar hepatocellular carcinoma in mice and identifies β-catenin activation and environmental factors as contributors to tumor progression.