Aaron R. Jeffries

The paper presents a high-quality chromosome-level genome assembly of the Arabian killifish, providing a genomic resource for comparative genomics studies.

This study identifies 52 genes in MRSA associated with reduced vancomycin survival, emphasizing the role of prophage loci, metabolism, and stress responses over discrete resistance mechanisms.

This study shows that insulin/IGF1 signaling in podocytes regulates gene transcription by affecting spliceosome function and protein modifications.

This paper presents a high-quality genome assembly and tissue expression atlas for the European lobster, along with divergence time estimates and gene duplication analyses related to immunity and longevity.

This study investigates how Yersinia pseudotuberculosis survives antimicrobials using persisters, the Eagle effect, tolerance, and enzyme overexpression.

This study shows that S. aureus enters a viable but non-culturable state when competing with P. aeruginosa, altering its metabolism and survival strategies in response to antibiotics.

This study shows that subpopulations of stationary phase bacteria resist antimicrobial peptides through enhanced efflux and other mechanisms, and suggests combining tachyplesin with sertraline to combat resistance.

This study shows that phage presence reduces antibiotic efflux in bacteria, enhancing antibiotic efficacy and enabling lower concentrations for treatment.

The paper characterizes expressed transcripts in the human cortex across development, identifying novel coding sequences with clinical relevance.

This study identifies two pathogenic mechanisms, RNA toxicity and TCF4 isoform dysregulation, in Fuchs endothelial corneal dystrophy using patient-derived corneal endothelial cells and multi-omics analyses.

The paper demonstrates the use of water samples for real-time genomic surveillance of ISKNV in Lake Volta, Ghana, showing that water samples can detect viral variants matching those from infected fish.

The paper quantifies DNA methylation changes in human fetal pancreas development, identifying developmental differentially methylated positions and their genomic distribution.

The paper uses long-read transcript sequencing to identify differential isoform expression in the entorhinal cortex of tau transgenic mice, revealing novel isoforms and transcript associations with tau pathology.

This study compares Nanopore sequencing with DNA methylation microarrays to evaluate its viability for epigenetic epidemiology, finding high correlation and significant smoking-associated methylation sites.

The paper develops a novel epigenetic clock for fetal brain development to predict prenatal age in iPSCs and derived neurons, showing they remain epigenetically fetal despite differentiation.

This study uses long-read RNA sequencing to analyze isoform diversity in human and mouse cerebral cortex, revealing widespread alternative splicing and novel transcripts.

This study examines gene expression and DNA methylation changes in human astrocytes exposed to acute and recurrent low glucose, identifying UPR-related gene activation and methylation patterns.

The paper identifies cardiovascular and infectious disease mechanisms linked to atypical antipsychotic side-effects using transcriptome analysis and bioinformatics.

The paper identifies epigenetic aging abnormalities in growth disorders caused by mutations in epigenetic regulatory molecules.

The paper analyzes RNA sequencing data from human fetal brains to identify sex-biased gene expression, finding differences in 2558 autosomal and 155 X-chromosome genes, with implications for neurodevelopmental disorders.

This study identifies transcriptional changes in tau and amyloid mouse models, revealing gene expression patterns linked to AD pathology and immune response.