Evidence map›Paper›PMID 31488606›Full record

ArticleJournal of the American Society of Nephrology : JASN2019

Computational Segmentation and Classification of Diabetic Glomerulosclerosis.

Brandon Ginley, Brendon Lutnick, Kuang-Yu Jen, Agnes B Fogo, Sanjay Jain, Avi Rosenberg, Vighnesh Walavalkar, Gregory Wilding, John E Tomaszewski, Rabi Yacoub and 2 more

Abstract read
In one paragraph

Article in Journal of the American Society of Nephrology : JASN, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 114 papers, 2 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
114citing papers in PubMed, 2 pooled it
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

114 citing papers in PubMed, 2 syntheses or guidelines pooled it.

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54 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

12 authors.

Brandon GinleyDepartments of Pathology and Anatomical Sciences.
Brendon LutnickDepartments of Pathology and Anatomical Sciences.ORCID 0000-0001-7360-3302
Kuang-Yu JenDepartment of Pathology and Laboratory Medicine, University of California, Davis Medical Center, Sacramento, California.ORCID 0000-0003-2815-5912
Agnes B FogoDepartments of Pathology, Microbiology, and Immunology and Medicine, Vanderbilt University, Nashville, Tennessee.
Sanjay JainDivision of Nephrology, Department of Medicine, Washington University School of Medicine, St. Louis, Missouri.
Avi RosenbergDepartment of Pathology, Johns Hopkins University School of Medicine, Baltimore, Maryland.ORCID 0000-0003-2356-950X
Vighnesh WalavalkarDepartment of Pathology, University of California San Francisco, San Francisco, California; and.
Gregory WildingBiostatistics.
John E TomaszewskiDepartments of Pathology and Anatomical Sciences.
Rabi YacoubDivision of Nephrology, Department of Medicine, University at Buffalo-The State University of New York, Buffalo, New York.
Giovanni Maria RossiDepartment of Pathology, Johns Hopkins University School of Medicine, Baltimore, Maryland.
Pinaki SarderDepartments of Pathology and Anatomical Sciences, pinakisa@buffalo.edu.

Funding

Coordinating and Bioinformatics Unit for the MMPC/DiaCompU24DK076169 · NIDDK · AUGUSTA UNIVERSITY · PI MCINDOE, RICHARD A. · 2006 to 2018
$42.4M
Computational Imaging of Renal Structures for Diagnosing DiabeticNephropathyR01DK114485 · NIDDK · UNIVERSITY OF FLORIDA · PI Michael Thomas Eadon, Avi Z Rosenberg · 2018 to 2026
$4.7M
NIDDK NIH HHS R01 DK114485NIDDK NIH HHS U24 DK076169
6 · The paper itself

Abstract

backgroundPathologists use visual classification of glomerular lesions to assess samples from patients with diabetic nephropathy (DN). The results may vary among pathologists. Digital algorithms may reduce this variability and provide more consistent image structure interpretation.

methodsWe developed a digital pipeline to classify renal biopsies from patients with DN. We combined traditional image analysis with modern machine learning to efficiently capture important structures, minimize manual effort and supervision, and enforce biologic prior information onto our model. To computationally quantify glomerular structure despite its complexity, we simplified it to three components consisting of nuclei, capillary lumina and Bowman spaces; and Periodic Acid-Schiff positive structures. We detected glomerular boundaries and nuclei from whole slide images using convolutional neural networks, and the remaining glomerular structures using an unsupervised technique developed expressly for this purpose. We defined a set of digital features which quantify the structural progression of DN, and a recurrent network architecture which processes these features into a classification.

resultsOur digital classification agreed with a senior pathologist whose classifications were used as ground truth with moderate Cohen's kappa κ = 0.55 and 95% confidence interval [0.50, 0.60]. Two other renal pathologists agreed with the digital classification with κ

conclusionsComputationally derived, histologic image features hold significant diagnostic information that may augment clinical diagnostics.

Indexed as

Diagnosis, Computer-AssistedDiabetic NephropathiesHumansKidney GlomerulusComputational renal pathologydiabetic nephropathyDigital pathologyglomerulusImage analysisTervaert's classification

Identifiers

PMID31488606
PMCPMC6779352

What OpenQuestion holds

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.