Fernando Antoneli

This paper introduces a method to estimate mutation rates as a distribution rather than a single number, using sequencing data from a single viral replication cycle.

This paper uses machine learning on direct RNA-seq data to show SARS-CoV-2 increases mA methylation in antiviral lncRNAs, potentially affecting IFN signaling and viral persistence.

This study identifies mitochondrial genome variants associated with ALS and reports haplogroup distribution patterns in ALS patients.

This paper classifies network topologies capable of generating infinitesimal homeostasis in multiple-input parameter networks and identifies three distinct mechanisms.

The paper identifies viral genome remnants in Neanderthal sequencing data by mapping to adenovirus, herpesvirus, and papillomavirus, showing divergence consistent with their age and viral evolutionary rates.

The paper uses direct RNA sequencing to identify m6A sites and analyze DRACH motif methylation differences in SARS-CoV-2 variants.

The paper infers the evolution of mitochondrial genomes in yeasts using phylogenomic supertrees and supermatrices, showing complex I loss predates a whole genome duplication and occurred independently in two yeast lineages.