Random-Reaction-Seed Method for Automated Identification of Neurite Elongation and Branching

Scientific Reports
Alvason Zhenhua LiJia Zhu

Abstract

Conventional deterministic algorithms (i.e., skeletonization and edge-detection) lack robustness and sensitivity to reliably detect the neurite elongation and branching of low signal-to-noise-ratio microscopy images. Neurite outgrowth experiments produce an enormous number of images that require automated measurement; however, the tracking of neurites is easily lost in the automated process due to the intrinsic variability of neurites (either axon or dendrite) under stimuli. We have developed a stochastic random-reaction-seed (RRS) method to identify neurite elongation and branching accurately and automatically. The random-seeding algorithm of RRS is based on the hidden-Markov-model (HMM) to offer a robust enough way for tracing arbitrary neurite structures, while the reaction-seeding algorithm of RRS secures the efficiency of random seeding. It is noteworthy that RRS is capable of tracing a whole neurite branch by only one initial seed, so that RRS is proficient at quantifying extensive amounts of neurite outgrowth images with noisy background in microfluidic devices of biomedical engineering fields. The method also showed notable performance for reconstructing of net-like structures, and thus is expected to be proficient for ...Continue Reading

References

Sep 5, 2013·Bioarchitecture·Kevin C Flynn
Nov 26, 2015·Scientific Reports·Kwang-Min KimG Tayhas R Palmore
Jul 2, 2016·Nature Reviews. Neurology·Christian LangePeter Carmeliet
Mar 23, 2017·IEEE Transactions on Image Processing : a Publication of the IEEE Signal Processing Society·Marcelo Pereyra, Steve McLaughlin
Jul 1, 2017·The Journal of Experimental Medicine·Tao PengJia Zhu

❮ Previous
Next ❯

Citations

Sep 14, 2019·Journal of Medicinal Chemistry·Vinícius Barros Ribeiro da SilvaVinicius Toledo Ribas

❮ Previous
Next ❯

Methods Mentioned

BETA
biopsies

Software Mentioned

- Tracer
Neurite Tracer
Neuron Image Analyzer
Python
RRS
Simple Neurite Tracer
Neurite
ImageJ
Neurite - Tracer
Fiji TM

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.

Related Papers

Journal of Biomolecular Screening
Peter RammBohdan J Soltys
Cytometry. Part a : the Journal of the International Society for Analytical Cytology
Guanglei XiongStephen T C Wong
Annual Review of Neuroscience
M E SchwabC E Bandtlow
© 2022 Meta ULC. All rights reserved