Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Texture preference task: a rapid and training-independent behavioural assay to evaluate somatosensory perception in freely moving mice.

MethodsX·2026
Same author

Quantifying photothrombotic ischemic volume in the intact brain using light sheet microscopy.

Neurophotonics·2026
Same author

Continuous monitoring and machine vision reveals that developing gerbils exhibit structured social behaviors prior to the emergence of autonomy.

PLoS biology·2025
Same author

Bridging the gap: umIT makes complex imaging data accessible to scientists of all backgrounds.

Neurophotonics·2025
Same author

Behavioral Classification of Sequential Neural Activity Using Time Varying Recurrent Neural Networks.

IEEE transactions on neural systems and rehabilitation engineering : a publication of the IEEE Engineering in Medicine and Biology Society·2025
Same author

Neurovascular coupling over cortical brain areas and resting state network connectivity with and without rigidified carotid artery.

Neurophotonics·2025
Same journal

<i>Neurophotonics</i> book club: "The Secret of Secrets" by Dan Brown - a thought-provoking twist on a famous neuroscience controversy.

Neurophotonics·2026
Same journal

Measurement of the absolute value of the optical birefringence of myelin in primate brain tissue.

Neurophotonics·2026
Same journal

Data-driven optimization of preschoolers' hemodynamic response in a VR setup: advancing analytic methods for children's fNIRS naturalistic data with the AICopt method.

Neurophotonics·2026
Same journal

Multimodal optical imaging combining voltage-sensitive dye ElectroFluor630 with genetically encoded calcium, glutamate, or voltage indicators.

Neurophotonics·2026
Same journal

Data-driven wavelet coherence approach to assess neurovascular coupling in neonatal hypoxic-ischemic encephalopathy.

Neurophotonics·2026
Same journal

Effect of sleep stage on patterns of fNIRS hemodynamic response to auditory paradigms in 1-month-old Gambian and UK infants.

Neurophotonics·2026
See all related articles

Related Experiment Video

Updated: Mar 1, 2026

Neurovascular Network Explorer 2.0: A Simple Tool for Exploring and Sharing a Database of Optogenetically-evoked Vasomotion in Mouse Cortex In Vivo
08:32

Neurovascular Network Explorer 2.0: A Simple Tool for Exploring and Sharing a Database of Optogenetically-evoked Vasomotion in Mouse Cortex In Vivo

Published on: May 4, 2018

6.8K

Mesoscale brain explorer, a flexible python-based image analysis and visualization tool.

Dirk Haupt1,2, Matthieu P Vanni1,2, Federico Bolanos1,2

  • 1University of British Columbia, Kinsmen Laboratory of Neurological Research, Faculty of Medicine, Department of Psychiatry, Vancouver, Canada.

Neurophotonics
|June 1, 2017
PubMed
Summary
This summary is machine-generated.

A new Python tool, the Mesoscale Brain Explorer (MBE), helps researchers process and analyze vast mesoscale brain activity datasets. This tool facilitates deeper insights into brain region interactions and functional connectivity from imaging data.

Keywords:
brain imagingconnectomecortexmesoscaleoptogeneticswidefield

More Related Videos

Three-Dimensional Shape Modeling and Analysis of Brain Structures
05:33

Three-Dimensional Shape Modeling and Analysis of Brain Structures

Published on: November 14, 2019

7.7K
Whole-Brain Single-Cell Imaging and Analysis of Intact Neonatal Mouse Brains Using MRI, Tissue Clearing, and Light-Sheet Microscopy
08:49

Whole-Brain Single-Cell Imaging and Analysis of Intact Neonatal Mouse Brains Using MRI, Tissue Clearing, and Light-Sheet Microscopy

Published on: August 1, 2022

4.3K

Related Experiment Videos

Last Updated: Mar 1, 2026

Neurovascular Network Explorer 2.0: A Simple Tool for Exploring and Sharing a Database of Optogenetically-evoked Vasomotion in Mouse Cortex In Vivo
08:32

Neurovascular Network Explorer 2.0: A Simple Tool for Exploring and Sharing a Database of Optogenetically-evoked Vasomotion in Mouse Cortex In Vivo

Published on: May 4, 2018

6.8K
Three-Dimensional Shape Modeling and Analysis of Brain Structures
05:33

Three-Dimensional Shape Modeling and Analysis of Brain Structures

Published on: November 14, 2019

7.7K
Whole-Brain Single-Cell Imaging and Analysis of Intact Neonatal Mouse Brains Using MRI, Tissue Clearing, and Light-Sheet Microscopy
08:49

Whole-Brain Single-Cell Imaging and Analysis of Intact Neonatal Mouse Brains Using MRI, Tissue Clearing, and Light-Sheet Microscopy

Published on: August 1, 2022

4.3K

Area of Science:

  • Neuroscience
  • Computational Neuroscience
  • Brain Imaging

Background:

  • Mesoscale brain imaging maps interactions between brain regions using optical methods and voltage-sensitive dyes.
  • Advancements include cell-targeted indicators for neuronal activity, with resting-state activity used for connectivity mapping.
  • Current mesoscale datasets are vast, with information often superficially presented due to measurement constraints.

Purpose of the Study:

  • To introduce the Mesoscale Brain Explorer (MBE), an open-source Python tool for processing and exploring large mesoscale brain activity datasets.
  • To provide an interface for automated image processing, trial assessment, and data combination across animals.
  • To enable advanced analysis of functional connectivity using temporal filtering, averaging, and time-dependent correlation.

Main Methods:

  • Developed an open-source Python tool named Mesoscale Brain Explorer (MBE).
  • Implemented automated image processing pipelines within MBE.
  • Integrated functions for temporal filtering, averaging, and time-dependent correlation analysis for functional connectivity.

Main Results:

  • MBE provides an interface to process and explore large mesoscale brain activity datasets.
  • The platform supports automated image processing, multiple trial assessment, and data integration from different animals.
  • Demonstrated applications by reanalyzing previously published datasets using MBE.

Conclusions:

  • The Mesoscale Brain Explorer (MBE) facilitates comprehensive analysis of mesoscale brain imaging data.
  • MBE enables deeper exploration of functional connectivity and brain region interactions.
  • The tool enhances the utility of existing mesoscale datasets and supports future research.