Kenneth W. Dunn
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View article: Renal Proximal Tubule Cell-Specific Megalin Deletion Does Not Affect Atherosclerosis But Induces Tubulointerstitial Nephritis in Mice Fed a Western Diet
Renal Proximal Tubule Cell-Specific Megalin Deletion Does Not Affect Atherosclerosis But Induces Tubulointerstitial Nephritis in Mice Fed a Western Diet Open
BACKGROUND: Pharmacological inhibition of megalin (also known as LRP2 [low-density lipoprotein receptor-related protein-2]) attenuates atherosclerosis in hypercholesterolemic mice. Since megalin is abundant in renal proximal tubule cells (…
View article: Longitudinal intravital microscopy of the mouse kidney: inflammatory responses to abdominal imaging windows
Longitudinal intravital microscopy of the mouse kidney: inflammatory responses to abdominal imaging windows Open
Intravital microscopy studies of LysM-EGFP mice demonstrate that abdominal imaging windows placed over the kidney stimulated a variety of changes consistent with a foreign body response. Within a day of implantation, leukocytes were recrui…
View article: Renal Proximal Tubule Cell-specific Megalin Deletion Does Not Affect Atherosclerosis But Induces Tubulointerstitial Nephritis in Mice Fed Western Diet
Renal Proximal Tubule Cell-specific Megalin Deletion Does Not Affect Atherosclerosis But Induces Tubulointerstitial Nephritis in Mice Fed Western Diet Open
Background Pharmacological inhibition of megalin (also known as low-density lipoprotein receptor-related protein 2: LRP2) attenuates atherosclerosis in hypercholesterolemic mice. Since megalin is abundant in renal proximal tubule cells (PT…
View article: A Quantitative Metric of Confidence For Segmentation of Nuclei in Large Spatially Variable Image Volumes
A Quantitative Metric of Confidence For Segmentation of Nuclei in Large Spatially Variable Image Volumes Open
Nuclei segmentation is an important step for quantitative analysis of fluorescence microscopy images. A large volume generally has many different regions containing nuclei with varying spatial characteristics. Automatically identifying nuc…
View article: Reducing target binding affinity improves the therapeutic index of anti-MET antibody-drug conjugate in tumor bearing animals
Reducing target binding affinity improves the therapeutic index of anti-MET antibody-drug conjugate in tumor bearing animals Open
Many oncology antibody-drug conjugates (ADCs) have failed to demonstrate efficacy in clinic because of dose-limiting toxicity caused by uptake into healthy tissues. We developed an approach that harnesses ADC affinity to broaden the therap…
View article: An atlas of healthy and injured cell states and niches in the human kidney
An atlas of healthy and injured cell states and niches in the human kidney Open
Understanding kidney disease relies on defining the complexity of cell types and states, their associated molecular profiles and interactions within tissue neighbourhoods 1 . Here we applied multiple single-cell and single-nucleus assays (…
View article: Reducing Target Binding Affinity Improves The Therapeutic Index Of Anti-MET Antibody Drug Conjugate In Tumor Bearing Animals
Reducing Target Binding Affinity Improves The Therapeutic Index Of Anti-MET Antibody Drug Conjugate In Tumor Bearing Animals Open
• Background And Purpose: Many oncology ADCs have failed to demonstrate efficacy in clinic because of dose-limiting toxicity. We developed an approach that harnesses ADC affinity to broaden the therapeutic index (TI). • Experimental Approa…
View article: Factor VIII Trafficking to CD4+ T cells Shapes its Immunogenicity and Requires Several Types of Antigen Presenting Cells
Factor VIII Trafficking to CD4+ T cells Shapes its Immunogenicity and Requires Several Types of Antigen Presenting Cells Open
Despite over 80 years of clinical experience with coagulation factor (F)VIII inhibitors, surprisingly little is known about the in vivo mechanism of this most serious complication of replacement therapy for hemophilia A. These neutralizing…
View article: Examining the Bone Marrow Niche in a Fracture Healing Model with the Use of Multiplex Imaging and Transcriptomics Technologies
Examining the Bone Marrow Niche in a Fracture Healing Model with the Use of Multiplex Imaging and Transcriptomics Technologies Open
Background: In the US, 6.3 million fractures occur annually. Additionally, 5-10% of fractures do not heal without additional interventions. The bone microenvironment is comprised of cells such as osteoblasts (OBs), megakaryocytes (MKs), an…
View article: Epigenetic basis of diabetic vasculopathy
Epigenetic basis of diabetic vasculopathy Open
Type 2 diabetes mellitus (T2DM) causes peripheral vascular disease because of which several blood-borne factors, including vital nutrients fail to reach the affected tissue. Tissue epigenome is sensitive to chronic hyperglycemia and is kno…
View article: Multi-Scalar Data Integration Links Glomerular Angiopoietin-Tie Signaling Pathway Activation With Progression of Diabetic Kidney Disease
Multi-Scalar Data Integration Links Glomerular Angiopoietin-Tie Signaling Pathway Activation With Progression of Diabetic Kidney Disease Open
Diabetic kidney disease (DKD) is the leading cause of end-stage kidney disease (ESKD). Prognostic biomarkers reflective of underlying molecular mechanisms are critically needed for effective management of DKD. A three-marker panel was deri…
3D Centroidnet: Nuclei Centroid Detection with Vector Flow Voting Open
Automated microscope systems are increasingly used to collect large-scale 3D image volumes of biological tissues. Since cell boundaries are seldom delineated in these images, detection of nuclei is a critical step for identifying and analy…
View article: SYNTHETIC VOLUMES AND 3D GROUND TRUTH ANNOTATIONS OF NUCLEI IN 3D MICROSCOPY VOLUMES
SYNTHETIC VOLUMES AND 3D GROUND TRUTH ANNOTATIONS OF NUCLEI IN 3D MICROSCOPY VOLUMES Open
Manual ground truth annotations of subvolumes of eight microscopy volumes are provided. Synthetic subvolumes, generated with an SpCycelGAN, of the same volumes are also provided.
View article: SYNTHETIC VOLUMES AND 3D GROUND TRUTH ANNOTATIONS OF NUCLEI IN 3D MICROSCOPY VOLUMES
SYNTHETIC VOLUMES AND 3D GROUND TRUTH ANNOTATIONS OF NUCLEI IN 3D MICROSCOPY VOLUMES Open
Manual ground truth annotations of subvolumes of eight microscopy volumes are provided. Synthetic subvolumes, generated with an SpCycelGAN, of the same volumes are also provided.
View article: 3D Ground Truth Annotations of Nuclei in 3D Microscopy Volumes
3D Ground Truth Annotations of Nuclei in 3D Microscopy Volumes Open
In this paper we describe a set of 3D microscopy volumes we have partially manually annotated. We describe the volumes annotated and the tools and processes we use to annotate the volumes. In addition, we provide examples of annotated subv…
View article: 3D Centroidnet: Nuclei Centroid Detection with Vector Flow Voting
3D Centroidnet: Nuclei Centroid Detection with Vector Flow Voting Open
Automated microscope systems are increasingly used to collect large-scale 3D image volumes of biological tissues. Since cell boundaries are seldom delineated in these images, detection of nuclei is a critical step for identifying and analy…
View article: NISNet3D: Three-Dimensional Nuclear Synthesis and Instance Segmentation for Fluorescence Microscopy Images
NISNet3D: Three-Dimensional Nuclear Synthesis and Instance Segmentation for Fluorescence Microscopy Images Open
The primary step in tissue cytometry is the automated distinction of individual cells (segmentation). Since cell borders are seldom labeled, researchers generally segment cells by their nuclei. While effective tools have been developed for…
An Ensemble Learning and Slice Fusion Strategy for Three-Dimensional Nuclei Instance Segmentation Open
Automated microscopy image analysis is a fundamental step for digital pathology and computer aided diagnosis. Most existing deep learning methods typically require post-processing to achieve instance segmentation and are computationally ex…
View article: DINAVID: A Distributed and Networked Image Analysis System for Volumetric Image Data
DINAVID: A Distributed and Networked Image Analysis System for Volumetric Image Data Open
Background The advancement of high content optical microscopy has enabled the acquisition of very large 3D image datasets. Image analysis tools and three dimensional visualization are critical for analyzing and interpreting 3D image volume…
View article: Editorial: Proceedings of the 2021 Indiana O'Brien Center Microscopy Workshop
Editorial: Proceedings of the 2021 Indiana O'Brien Center Microscopy Workshop Open
EDITORIAL article Front. Physiol., 02 May 2022Sec. Renal and Epithelial Physiology https://doi.org/10.3389/fphys.2022.891526
View article: An Ensemble Learning and Slice Fusion Strategy for Three-Dimensional Nuclei Instance Segmentation
An Ensemble Learning and Slice Fusion Strategy for Three-Dimensional Nuclei Instance Segmentation Open
Automated microscopy image analysis is a fundamental step for digital pathology and computer aided diagnosis. Most existing deep learning methods typically require post-processing to achieve instance segmentation and are computationally ex…
View article: Integrated cytometry with machine learning applied to high-content imaging of human kidney tissue for <i>in-situ</i> cell classification and neighborhood analysis
Integrated cytometry with machine learning applied to high-content imaging of human kidney tissue for <i>in-situ</i> cell classification and neighborhood analysis Open
The human kidney is a complex organ with various cell types that are intricately organized to perform key physiological functions and maintain homeostasis. New imaging modalities such as mesoscale and highly multiplexed fluorescence micros…
View article: Digital Image Analysis Tools Developed by the Indiana O’Brien Center
Digital Image Analysis Tools Developed by the Indiana O’Brien Center Open
The scale and complexity of images collected in biological microscopy have grown enormously over the past 30 years. The development and commercialization of multiphoton microscopy has promoted a renaissance of intravital microscopy, provid…
View article: Foreign Body Response and Intravital Microscopy on AIW in Mice
Foreign Body Response and Intravital Microscopy on AIW in Mice Open
The foreign body response is the body’s response to the insertion of an object. The foreign body response consists of two components, the innate and adaptive immune response, and lasts for the life of the inserted object. Accordingly, the …