John‐Paul J. Yu

ORCID: 0000-0003-1878-052X
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About
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Research Areas
  • Advanced Neuroimaging Techniques and Applications
  • Gut microbiota and health
  • Radiology practices and education
  • Radiation Dose and Imaging
  • Radiomics and Machine Learning in Medical Imaging
  • Diet and metabolism studies
  • Genetics and Neurodevelopmental Disorders
  • Tryptophan and brain disorders
  • MRI in cancer diagnosis
  • Algebraic Geometry and Number Theory
  • Functional Brain Connectivity Studies
  • Patient Safety and Medication Errors
  • Advanced X-ray and CT Imaging
  • Digital Radiography and Breast Imaging
  • Autism Spectrum Disorder Research
  • Advanced MRI Techniques and Applications
  • Medical Imaging Techniques and Applications
  • Neurogenesis and neuroplasticity mechanisms
  • Ultrasound in Clinical Applications
  • Healthcare Operations and Scheduling Optimization
  • Psychedelics and Drug Studies
  • Clinical Reasoning and Diagnostic Skills
  • Cellular transport and secretion
  • Fetal and Pediatric Neurological Disorders
  • Alzheimer's disease research and treatments

University of Wisconsin–Madison
2016-2025

Zimmer Biomet (Netherlands)
2025

Oncoscience (Germany)
2025

Wisconsin Institutes for Discovery
2018-2024

University of California, Davis
2012-2023

University of California, San Francisco
1991-2017

Oregon Health & Science University
2014

National University of Natural Medicine
2014

Columbia University
2004-2013

University of California System
2012

Nisin is a posttranslationally modified antimicrobial peptide that widely used as food preservative. It contains five cyclic thioethers of varying sizes are installed by single enzyme, NisC. Reported here the in vitro reconstitution cyclization process and x-ray crystal structure NisC enzyme. The reveals similarities fold substrate activation with mammalian farnesyl transferases, suggesting human homologs modify cysteine protein substrate.

10.1126/science.1121422 article EN Science 2006-03-09

Neuroinflammation plays a central role in the neuropathogenesis of wide-spectrum neurologic and psychiatric disease, but current neuroimaging methods to detect characterize neuroinflammation are limited. We explored sensitivity quantitative multi-compartment diffusion MRI, specifically neurite orientation dispersion density imaging (NODDI), changes microglial brain. Monte Carlo simulations water using NODDI acquisition scheme were performed measure virtual MRI signal following modeled...

10.3389/fnins.2019.00081 article EN cc-by Frontiers in Neuroscience 2019-02-19

In Alzheimer's disease (AD), neurodegenerative processes are ongoing for years prior to the time that cortical atrophy can be reliably detected using conventional neuroimaging techniques. Recent advances in diffusion-weighted imaging have provided new techniques study neural microstructure, which may provide additional information regarding neurodegeneration. this study, we used neurite orientation dispersion and density (NODDI), a multi-compartment diffusion model, order investigate...

10.1093/cercor/bhz286 article EN Cerebral Cortex 2019-12-05

Artificial intelligence decision support systems are a rapidly growing class of tools to help manage ever-increasing imaging volumes. The aim this study was evaluate the performance an artificial system, Aidoc, for detection cervical spinal fractures on noncontrast spine CT scans and conduct failure mode analysis identify areas poor performance.This retrospective included 1904 emergent adult patients (60 [SD, 22] years, 50.3% men). presence fracture determined by Aidoc attending...

10.3174/ajnr.a7179 article EN cc-by American Journal of Neuroradiology 2021-06-11

Altered gut microbiome populations are associated with a broad range of neurodevelopmental disorders including autism spectrum disorder and mood disorders. In animal models, modulation via dietary manipulation influences brain function behavior has been shown to ameliorate behavioral symptoms. With striking differences in microbiome-driven behavior, we explored whether these changes also accompanied by corresponding neural tissue microstructure. Utilizing diffusion tensor imaging, identified...

10.1038/s41398-017-0022-5 article EN cc-by Translational Psychiatry 2018-01-09

Background: A variety of imaging modalities are currently used for the preoperative evaluation cartilage tumors. Although anatomic details lesions demonstrated well on computerized tomography and magnetic resonance images, those studies yield little information about biologic activity In this study, we investigated glucose metabolism tumors measured by positron emission its correlation with histopathologic grades. Methods: Thirty-five biopsy-proven cartilaginous in twenty-seven patients were...

10.2106/00004623-200412000-00014 article EN Journal of Bone and Joint Surgery 2004-12-01

There is surging interest in the therapeutic potential of psychedelic compounds like psilocybin treatment psychiatric illnesses major depressive disorder (MDD). Recent studies point to rapid antidepressant effect psilocybin; however, biological mechanisms underlying these differences remain unknown. This study determines feasibility using diffusion MRI characterize and define spatiotemporal microstructural brain following C57BL/6J male mice. 11-15 week-old mice were randomized receive...

10.3174/ajnr.a8634 article EN American Journal of Neuroradiology 2025-01-29

Introduction: Automated imaging analysis tools are increasingly used in clinical decision-making for stroke. Rapid ASPECTS (iSchemaView, Menlo Park, CA) assists physicians by automatically calculating Alberta Stroke Program Early CT Scores (ASPECTS) and reducing inter-reader variability. To understand why the tool’s performance real-world settings sometimes varies compared to published literature, we investigated how different acquisition protocols affect its performance....

10.1161/str.56.suppl_1.wp177 article EN Stroke 2025-01-30

<h3>BACKGROUND AND PURPOSE:</h3> Super-resolution track density imaging generates anatomic images with submillimeter voxel resolution by using high-angular-resolution diffusion and fiber-tractography. TDI within the diseased human brain has not been previously described. The purpose of this study was to correlate histopathologic features GBM. <h3>MATERIALS METHODS:</h3> A total 43 tumor specimens (24 contrast-enhancing, 12 NE, 7 centrally necrotic regions) were collected from 18 patients...

10.3174/ajnr.a3400 article EN cc-by American Journal of Neuroradiology 2013-02-14

Despite recent advances in understanding the connection between gut microbiota and adult brain, there remains a wide knowledge gap how inflammation impacts brain development. We hypothesized that intestinal early life would negatively affect neurodevelopment through dysregulation of communication to brain. therefore developed novel pediatric chemical model inflammatory bowel disease (IBD), an incurable condition affecting millions people worldwide. IBD is characterized by chronic...

10.1016/j.bbi.2024.12.003 article EN cc-by-nc-nd Brain Behavior and Immunity 2024-12-01

Endoplasmic reticulum-based Nɛ-lysine acetylation serves as an important protein quality control system for the secretory pathway. Dysfunctional endoplasmic acetylation, caused by overexpression of acetyl coenzyme A transporter AT-1 in mouse, results altered glycoprotein flux through pathway and autistic-like phenotype. works concert with SLC25A1, citrate/malate antiporter mitochondria, SLC13A5, plasma membrane sodium/citrate symporter ATP citrate lyase, cytosolic enzyme that converts into...

10.1093/braincomms/fcac002 article EN cc-by Brain Communications 2022-01-03

Abstract Diffusion tensor imaging (DTI) has provided remarkable insight into our understanding of white matter microstructure and brain connectivity across a broad spectrum psychiatric disease. While DTI other diffusion weighted magnetic resonance (MRI) methods have clarified the axonal contribution to disconnectivity seen in numerous diseases, absent from these studies are quantitative indices neurite density orientation that especially important features regions high synaptic would capture...

10.1038/s41398-019-0429-2 article EN cc-by Translational Psychiatry 2019-02-11

Abstract N ε-lysine acetylation within the lumen of endoplasmic reticulum is a recently characterized protein quality control system that positively selects properly folded glycoproteins in early secretory pathway. Overexpression acetyl-CoA transporter AT-1 mouse forebrain neurons results increased dendritic branching, spine formation and an autistic-like phenotype attributed to altered glycoprotein flux through overexpressing maintain cytosolic pool by upregulation SLC25A1, mitochondrial...

10.1093/brain/awab295 article EN Brain 2021-09-10

Alzheimer's disease (AD) is the most common aging-associated neurodegenerative disease; nevertheless, etiology and progression of still incompletely understood. We have previously shown that microbially-derived metabolite trimethylamine N-oxide (TMAO) elevated in cerebrospinal fluid (CSF) individuals with cognitive impairment due to AD positively correlates increases CSF biomarkers for tangle, plaque, neuronal pathology.

10.3233/jad-220413 article EN Journal of Alzheimer s Disease 2022-09-20

TreeGenes and tree fruit Genome Database Resources serve the international forestry genomics research communities, respectively. These databases hold similar sequence data provide resources for submission recovery of this information in order to enable comparative research. Large-scale genotype phenotype projects have recently spawned development independent tools interfaces within these repositories deliver both geneticists breeders. The increase next generation sequencing has increased...

10.1007/s11295-012-0494-7 article EN cc-by Tree Genetics & Genomes 2012-03-26
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