Joshua Adkins

In 174 sedentary adults, resistance exercise changed more muscle molecular features than endurance exercise across omes and time points; network analysis nominates MEF2A and NFIC as regulatory hubs.

The paper analyzes multi-omic, multi-tissue molecular responses to acute exercise in sedentary adults, identifying key pathways and exerkines involved in exercise effects.

This study identifies a novel E3 ligase secreted by Pseudomonas aeruginosa that regulates virulence through ubiquitin modification.

The paper introduces RomicsProcessor, a reproducible-by-design tool for multi-omics and spatial-omics analysis that enforces FAIR principles and ensures computational reproducibility.

This study uses mass spectrometry to identify caspase targets in primary intestinal epithelial cells following NAIP-NLRC4 inflammasome activation, revealing novel cleavage sites beyond known Caspase-1 substrates.

The paper identifies tissue-specific transcriptional regulatory programs in rats undergoing endurance exercise training by integrating chromatin accessibility, DNA methylation, and gene expression data.

The paper profiles multi-omic changes in abdominal subcutaneous adipose tissue after acute exercise in sedentary adults, identifying distinct molecular programs and candidate exerkines.

This study identifies sex-specific multi-omic responses to endurance exercise training in rat lungs, revealing differences in immune pathways and mitochondrial acetylation between males and females.

This study uses sorted-cell proteomics to identify BPD-specific proteome changes in epithelial and endothelial cells, revealing cornification-associated proteins and redox imbalance.

This study identifies changes in the skeletal muscle nuclear proteome after acute exercise, revealing post-transcriptional effects on mRNA processing and splicing.

This study examines how endurance exercise affects liver metabolism in male and female rats over time, revealing sex-specific molecular changes and protective effects.

This study examines how endurance exercise training affects rat subcutaneous white adipose tissue, revealing sex-specific molecular responses and differences in adiposity and metabolism.

The paper constructs a single-cell reference atlas for human and mouse lung tissues to improve cell type annotation and data integration.

The paper describes the LungMAP Portal Ecosystem, a centralized resource integrating multi-omics and imaging data across species to enable standardized analysis of lung biology and disease.

This study profiles multi-omic changes in multiple tissues of rats during endurance exercise training, identifying molecular adaptations and sex-specific responses across time.

This paper introduces a nested nanowell chip to improve single-cell proteomics throughput and robustness, demonstrating the ability to quantify ~1500 proteins from ~100 cells with low abundance variation.