Joshua J. Coon

This paper evaluates a metabolomics workflow using microchip CE-MS with indexed migration time and single-point external calibration, showing improved accuracy and consistency across biological matrices.

This study maps proteome-wide QTLs in a MASLD mouse model to construct gene-protein-phenotype metabolic networks, identifying Ubr1 as a central regulator of proteostasis and lipid metabolism.

This paper identifies SppA as a critical protein for septal integrity in A. fumigatus, showing its role in antifungal tolerance and virulence.

This paper introduces RaPiD-mAb-MS, a direct infusion mass spectrometry method for rapid peptide mapping of monoclonal antibodies, achieving 100-fold faster analysis with high sequence coverage and comparable results to conventional methods.

This study uses multi-omic analysis to show NO* drives controlled remodeling in macrophages, with AKR1A1 mediating negative regulation of metabolic and functional changes during immune response.

This study identifies UFMylation of PDH as a regulator of mitochondrial metabolism, showing it enhances pyruvate oxidation and TCA cycle activity.

The paper identifies ILF2/3 as a regulator of primate cell fate by suppressing Alu element editing, showing its role in preventing aberrant splicing and maintaining epigenetic stability.

The paper identifies strain-specific GRA5 polymorphisms in T. gondii using proteomic analysis of cerebrospinal fluid from reactivated toxoplasmosis cases, suggesting a proteotype for strain risk stratification.

The paper presents a comprehensive atlas of lysine acetylation in the mouse, identifying 17,952 sites across 15 tissues and highlighting shared and tissue-specific acetylation events.

The paper investigates how emitter positioning affects peptide signal intensity in nanoflow electrospray ionization for proteomics, finding consistent signal behavior across m/z range.

This study examines how drought at different developmental stages affects switchgrass physiology, metabolism, and biofuel yield, finding that vegetative-stage drought increases resilience but reduces biofuel production.

The paper identifies genomic targets for improving anaerobic chemical tolerance in Zymomonas mobilis using orthogonal gene perturbation screens and validates findings through gene deletions.

This study identifies polyamine-dependent tumor-adipose crosstalk as an early driver of fat wasting in cancer cachexia, linking polyamine metabolism to adipocyte lipolysis and poor patient survival.

The paper quantifies enzyme burdens in glycolytic pathways of three bacteria, finding that thermodynamically favorable pathways require less enzymatic protein to sustain the same flux.

This study shows that AAV2 genomes compete with host RPA for binding, causing replication stress and DNA damage, which suppresses viral gene expression.

This study uses machine learning to identify gene families associated with oxidative stress resistance in yeasts and validates their roles experimentally.

The paper identifies a UPRmt modulator, fipp-1/FIP1L1, that extends lifespan in C. elegans and is associated with metabolic homeostasis in humans.

This study shows IFIT3 binds RNA and enhances influenza A virus translation, revealing its pro-viral role during infection.

This study identifies SLX4IP as a suppressor of BLM-driven replication stress at ALT telomeres and reveals its parallel function with FANCM to regulate telomere maintenance.

This paper evaluates six plasma proteomic technologies, finding that Seer Proteograph XT provides the highest proteomic depth and quantification, while Olink Explore HT shows comparable LOD but worse LOQ.

This study shows that adjusting pH and using SAA pretreatment improves biofuel production from drought-switchgrass hydrolysates.

This study shows that heme biosynthesis regulates BCAA catabolism and thermogenesis in brown adipose tissue by affecting UCP1 and mitochondrial function.

This study identifies how altering translation in E. coli mitigates the growth inhibition caused by chemically stabilized G-quadruplexes.

This study uses nMOST to profile proteo-lipidomics in lysosomal storage disease mutants, revealing autophagy defects and mitochondrial dysfunction.

The paper develops SPE-CZE-MS for quantifying phosphorylated peptides in single-cell equivalent phosphoproteomics, demonstrating improved sensitivity and compatibility with mass spectrometry.

The paper identifies an ER pathway that regulates N-glycosylation by modulating OST-A activity, impacting cell-surface signaling and tissue development.

The paper identifies genetic and molecular regulators of lifespan in C. elegans using a recombinant inbred population and validates their relevance to human age-related diseases.

The paper develops deep learning models to predict FAIMS ion mobility of peptides from sequence, achieving high F2 score on E. coli peptides.

The paper introduces a method using the Orbitrap Astral mass spectrometer with DIA to rapidly analyze phosphoproteomes, detecting over 80,000 phosphorylation sites in mice.

This paper introduces AI-TMT, a method enhancing single-cell proteomics sensitivity by improving reporter ion generation, resulting in higher signal and faster analysis.