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NeuriteTracer specifications


Unique identifier OMICS_06589
Name NeuriteTracer
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
Computer skills Medium
Stability Stable
Maintained Yes


No version available


  • person_outline Alyson Fournier

Publication for NeuriteTracer

NeuriteTracer citations


Nucleic acid induced potentiation of matrix metalloproteinase 9 enzymatic activity

PMCID: 5941315
PMID: 29654109
DOI: 10.1042/BCJ20180035

[…] hst reagent (2 µg/ml) to identify the cell nuclei. Ten random fields of both β-III-tubulin and Hoechst images were captured under 200× magnification, and the images were processed in ImageJ using the NeuriteTracer plugin []. The number of nuclei and neurite pixel density were quantified from the images. […]


Simple and Inexpensive Paper Based Astrocyte Co culture to Improve Survival of Low Density Neuronal Networks

Front Neurosci
PMCID: 5835045
PMID: 29535595
DOI: 10.3389/fnins.2018.00094
call_split See protocol

[…] The neurite length at 5 DIV was quantified using the ImageJ (Schindelin et al., ) neurite tracing plugin NeuriteTracer (Pool et al., ). The plugin was used to calculate the overall neurite length and number of cells for each fluorescence image previously used to calculate viability. The threshold for iso […]


Mutations in THAP1/DYT6 reveal that diverse dystonia genes disrupt similar neuronal pathways and functions

PLoS Genet
PMCID: 5798844
PMID: 29364887
DOI: 10.1371/journal.pgen.1007169

[…] s: Tau (1:500, MN1000, ThermoFisher Scientific), TUJ1 (1:250, sc-51670, Santa Cruz), and MAP2 (1:1,000; AB5622, Millipore). Cells were visualized under an Olympus IX51 inverted fluorescent microscope.NeuriteTracer, a neurite tracing plugin for the freely available image-processing program ImageJ was used to analyze fluorescence microscopy images of neurites and nuclei of cultured primary neurons. […]


Jak kinase 3 signaling in microgliogenesis from the spinal nestin+ progenitors in both development and response to injury

PMCID: 5585131
PMID: 28817455
DOI: 10.1097/WNR.0000000000000854
call_split See protocol

[…] aining nuclei with Hoechst33258 (Sigma; Sigma-Aldrich, Saint Louis, USA), fluorescence images were acquired.To measure the Tuj1+ neurites bridging the wound edges, the growing neurites were traced by NeuriteTracer, a multiplatform free image-processing plugin software for ImageJ (NIH, USA), as described previously . After preprocessing and applying a suitable threshold, Tuj1+ fibers were skeletoni […]


Atf3 mutant mice show reduced axon regeneration and impaired regeneration associated gene induction after peripheral nerve injury

Open Biol
PMCID: 5008009
PMID: 27581653
DOI: 10.1098/rsob.160091
call_split See protocol

[…] icated in figure bars or text. For cell culture, at least three independent experiments were performed and at least 30 neurons were analysed in each experiment. Neurite growth was quantified with the NeuriteTracer plugin of ImageJ []. For quantification of immune cells, we used the Keyence BZ Analyzer software with the Hybrid cell count tool. For this, an ellipse of 950 × 750 µm was placed over th […]


Microfluidic neurite guidance to study structure function relationships in topologically complex population based neural networks

Sci Rep
PMCID: 4916598
PMID: 27328705
DOI: 10.1038/srep28384
call_split See protocol

[…] the neurite was taken at the beginning of the microchannel. The end of the neurite was manually tracked until a visible growth cone was pinpointed using ImageJ Simple neurite tracer or when possible NeuriteTracer. Changes in direction along its course were taken into account by tracing along the entire length of each extension. Extensions that were solitary and clearly isolated were measured only […]

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NeuriteTracer institution(s)
Department of Neurology and Neurosurgery, Montreal Neurological Institute, Montreal, QC, Canada

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