ArticleScientific reports2016
Automated Axon Counting in Rodent Optic Nerve Sections with AxonJ.
Article in Scientific reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 37 papers.
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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.
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Who cites it
37 citing papers in PubMed.
- Comparison of Deep Learning Tools for Optic Nerve Axon Quantification Finds Limited Generalizability Upon Independent Validation.Bioengineering (Basel, Switzerland) · 2026Article
- The 5-HT1A receptor antagonist WAY-100635 maleate promotes retinal ganglion cell differentiation and protects the retino-visual circuits.Communications medicine · 2026Article
- Comparison of Deep Learning Tools for Optic Nerve Axon Quantification Finds Limited Generalizability on Independent Validation.bioRxiv : the preprint server for biology · 2026Article
- AxoMetric platform facilitates rapid and unbiased automated quantification of axon regeneration in tissue sections.Cell reports methods · 2026Article
- Mitochondrial-Targeted HDAP2 Preserves Retinal Ganglion Cells and Increases Pressure Tolerance in DBA/2J Mice.Investigative ophthalmology & visual science · 2025Article
- Mitochondrial-Targeted HDAP2 Preserves Retinal Ganglion Cells and Increases Pressure Tolerance in DBA/2J Mice.bioRxiv : the preprint server for biology · 2025Article
- Absence of Glaucoma in Tg-MYOCY437H Mice of Diverse Genetic Backgrounds.Investigative ophthalmology & visual science · 2025Article
- Proposing a Methodology for Axon-Centric Analysis of IOP-Induced Mechanical Insult.Investigative ophthalmology & visual science · 2024Article
- In Search of Mouse Models for Exfoliation Syndrome.American journal of ophthalmology · 2024Article
- Enhanced Optic Nerve Expansion and Altered Ultrastructure of Elastic Fibers Induced by Lysyl Oxidase Inhibition in a Mouse Model of Marfan Syndrome.The American journal of pathology · 2024Article
- AxonQuantifier: A semi-automated program for quantifying axonal density from whole-mounted optic nerves.Journal of neuroscience methods · 2023Article
- AxoNet 2.0: A Deep Learning-Based Tool for Morphometric Analysis of Retinal Ganglion Cell Axons.Translational vision science & technology · 2023Article
- Morphological Methods to Evaluate Peripheral Nerve Fiber Regeneration: A Comprehensive Review.International journal of molecular sciences · 2023Review
- Automated pipeline for nerve fiber selection and g-ratio calculation in optical microscopy: exploring staining protocol variations.Frontiers in neuroanatomy · 2023Article
- AxonDeep: Automated Optic Nerve Axon Segmentation in Mice With Deep Learning.Translational vision science & technology · 2021Article
- Quantification and image-derived phenotyping of retinal ganglion cell nuclei in the nee mouse model of congenital glaucoma.Experimental eye research · 2021Article
- Axonopathy precedes cell death in ocular damage mediated by blast exposure.Scientific reports · 2021Article
- Identification of sensory and motor nerve fascicles by immunofluorescence staining after peripheral nerve injury.Journal of translational medicine · 2021Article
- Liraglutide, 7,8-DHF and their co-treatment prevents loss of vision and cognitive decline in a Wolfram syndrome rat model.Scientific reports · 2021Article
- TDP-43 mislocalization drives neurofilament changes in a novel model of TDP-43 proteinopathy.Disease models & mechanisms · 2021Article
Corrections and comments
- Erratum issued
Authors and funding
9 authors.
Funding
Abstract
We have developed a publicly available tool, AxonJ, which quantifies the axons in optic nerve sections of rodents stained with paraphenylenediamine (PPD). In this study, we compare AxonJ's performance to human experts on 100x and 40x images of optic nerve sections obtained from multiple strains of mice, including mice with defects relevant to glaucoma. AxonJ produced reliable axon counts with high sensitivity of 0.959 and high precision of 0.907, high repeatability of 0.95 when compared to a gold-standard of manual assessments and high correlation of 0.882 to the glaucoma damage staging of a previously published dataset. AxonJ allows analyses that are quantitative, consistent, fully-automated, parameter-free, and rapid on whole optic nerve sections at 40x. As a freely available ImageJ plugin that requires no highly specialized equipment to utilize, AxonJ represents a powerful new community resource augmenting studies of the optic nerve using mice.
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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.