Marc Wilkins

Jan 6, 2025 | biorxiv.org | Marc Wilkins |Angelita Liang

AbstractIn eukaryotes, alternative splicing allows RNA sequences to be changed as required in their cellular context. While the use of gene expression without considering transcript isoforms is commonly used to classify cell types, the significance of alternative splicing to cell identity is not fully understood.

Apr 2, 2024 | biorxiv.org | Marc Wilkins |Pablo F. Cañete |Di Yu |Adelle CF Coster

AbstractIn constructing Gene Regulatory Networks (GRNs), it is crucial to consider cellular heterogeneity and differential gene regulatory modules. However, traditional methods have predominantly focused on cellular heterogeneity, approaching the subject from a relatively narrow scope. We present HyperG-VAE, a Bayesian deep generative model that utilizes a hypergraph to model single-cell RNA sequencing (scRNA-seq) data.

Jan 16, 2024 | cell.com | Joshua J. Hamey |Marc Wilkins |Nicola M. Karakatsanis

Highlights Human histone demethylases are extensively phosphorylated, which can influence when and where they act on chromatin. Phosphorylation influences the function of histone demethylases via distinct mechanisms. Phosphorylation of histone demethylases occurs primarily in intrinsically disordered regions and at the interface of histone demethylase protein–protein interactions.

Jan 7, 2024 | jbc.org | Joshua J. Hamey |Amy Nguyen |Paige G. Pfeiffer |Marc Wilkins

AbstractTranslation elongation factor 1A (eEF1A) is an essential and highly conserved protein required for protein synthesis in eukaryotes. In both Saccharomyces cerevisiae and human, five different methyltransferases methylate specific residues on eEF1A, making eEF1A the eukaryotic protein targeted by the highest number of dedicated methyltransferases after histone H3.