Myosoft: An automated muscle histology analysis tool using machine learning algorithm utilizing FIJI/ImageJ software

Muscle sections were stained for cell boundary (laminin) and myofiber type (myosin heavy chain isoforms). Myosoft, running in the open access software platform FIJI (ImageJ), was used to analyze myofiber size and type in transverse sections of entire gastrocnemius/soleus muscles. Myosoft provides an...

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Published in:PloS one 2020-03, Vol.15 (3), p.e0229041-e0229041
Main Authors: Encarnacion-Rivera, Lucas, Foltz, Steven, Hartzell, H Criss, Choo, Hyojung
Format: Article
Language:English
Subjects:
Aging
Algorithms
Anatomy, Cross-Sectional - methods
Animals
Antibodies
Automation
Biology
Biology and Life Sciences
Cell Size
Computer and Information Sciences
Computer programs
Data mining
Diseases
Economic indicators
Fluorescence
High-Throughput Screening Assays - methods
Histological Techniques - methods
Histology
Image Processing, Computer-Assisted - methods
Image quality
Isoforms
Laminin
Learning algorithms
Machine Learning
Medicine
Medicine and Health Sciences
Metabolism
Methods
Mice
Mice, Inbred C57BL
Mice, Transgenic
Muscle contraction
Muscle Fibers, Skeletal - cytology
Muscle Fibers, Skeletal - pathology
Muscle function
Muscle proteins
Muscle, Skeletal - cytology
Muscle, Skeletal - pathology
Muscles
Musculoskeletal system
Myopathy
Myosin
Neural networks
Novels
Open access
Physiological aspects
Physiology
Reproducibility of Results
Research and Analysis Methods
Skeletal muscle
Software
Time
Watersheds
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cited_by cdi_FETCH-LOGICAL-c692t-dcd064426eb0e91d0f85b26035529842a9ae821ffaf28a4787bebcf9848b91b83
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creator Encarnacion-Rivera, Lucas
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description Muscle sections were stained for cell boundary (laminin) and myofiber type (myosin heavy chain isoforms). Myosoft, running in the open access software platform FIJI (ImageJ), was used to analyze myofiber size and type in transverse sections of entire gastrocnemius/soleus muscles. Myosoft provides an accurate analysis of hundreds to thousands of muscle fibers within 25 minutes, which is >10-times faster than manual analysis. We demonstrate that Myosoft is capable of handling high-content images even when image or staining quality is suboptimal, which is a marked improvement over currently available and comparable programs. Myosoft is a reliable, accurate, high-throughput, and convenient tool to analyze high-content muscle histology. Myosoft is freely available to download from Github at https://github.com/Hyojung-Choo/Myosoft/tree/Myosoft-hub.
doi_str_mv 10.1371/journal.pone.0229041
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subjects Aging
Algorithms
Anatomy, Cross-Sectional - methods
Animals
Antibodies
Automation
Biology
Biology and Life Sciences
Cell Size
Computer and Information Sciences
Computer programs
Data mining
Diseases
Economic indicators
Fluorescence
High-Throughput Screening Assays - methods
Histological Techniques - methods
Histology
Image Processing, Computer-Assisted - methods
Image quality
Isoforms
Laminin
Learning algorithms
Machine Learning
Medicine
Medicine and Health Sciences
Metabolism
Methods
Mice
Mice, Inbred C57BL
Mice, Transgenic
Muscle contraction
Muscle Fibers, Skeletal - cytology
Muscle Fibers, Skeletal - pathology
Muscle function
Muscle proteins
Muscle, Skeletal - cytology
Muscle, Skeletal - pathology
Muscles
Musculoskeletal system
Myopathy
Myosin
Neural networks
Novels
Open access
Physiological aspects
Physiology
Reproducibility of Results
Research and Analysis Methods
Skeletal muscle
Software
Time
Watersheds
title Myosoft: An automated muscle histology analysis tool using machine learning algorithm utilizing FIJI/ImageJ software
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