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

Efficient Deep Learning Models for Predicting Individualized Task Activation From Resting-State Functional Connectivity.

Human brain mapping·2026
Same author

Accurately fitting biophysical neuron models to experimental voltage data enabled by meta-learning.

Research square·2026
Same author

Refining RDoC Using Individual-Level Task fMRI Factor Models Reveals Reproducible and Clinically Relevant Brain-Wide Motifs.

bioRxiv : the preprint server for biology·2026
Same author

Global topology of brain-wide co-fluctuations links task states, personality, and behavioral symptom dimensions.

bioRxiv : the preprint server for biology·2026
Same author

Increased cortical thickness and decreased brain age among special operations veterans with blast TBI after a magnesium-ibogaine protocol.

iScience·2026
Same author

Neural Correlates of Ibogaine: Evidence From Functional Neuroimaging of Military Veterans.

Biological psychiatry. Cognitive neuroscience and neuroimaging·2026
Same journal

A human-specific genetic modifier reconfigures large-scale cortical network dynamics underlying behavioral performance.

bioRxiv : the preprint server for biology·2026
Same journal

<i>Staphylococcus aureus</i> uses a eukaryotic-like uridyltransferase to make UDP-GlcNAc for cell wall synthesis.

bioRxiv : the preprint server for biology·2026
Same journal

Dynamic redistribution of eIF4F controls cap-dependent translation initiation.

bioRxiv : the preprint server for biology·2026
Same journal

When does additional information improve accuracy of RNA secondary structure prediction?

bioRxiv : the preprint server for biology·2026
Same journal

Normative brain-state trajectories reveal deviation from healthy aging in Alzheimer's disease.

bioRxiv : the preprint server for biology·2026
Same journal

Noradrenergic infraslow rhythm during sleep is the critical link between heart-rate dynamics and memory consolidation.

bioRxiv : the preprint server for biology·2026
See all related articles

Related Experiment Video

Updated: Jul 12, 2025

Modeling the Functional Network for Spatial Navigation in the Human Brain
05:55

Modeling the Functional Network for Spatial Navigation in the Human Brain

Published on: October 13, 2023

1.1K

Deconstructing the Mapper algorithm to extract richer topological and temporal features from functional neuroimaging

Daniel Haşegan1, Caleb Geniesse1, Samir Chowdhury1

  • 1Department of Psychiatry and Behavioral Sciences, Stanford University.

Biorxiv : the Preprint Server for Biology
|October 31, 2023
PubMed
Summary
This summary is machine-generated.

Understanding brain activity dynamics is key to cognition. This study explores Topological Data Analysis (TDA) tool Mapper parameters using synthetic and fMRI data, offering guidance for researchers.

Keywords:
Brain DynamicsMapperNeuroimagingTDAfMRI

More Related Videos

Functional Mapping with Simultaneous MEG and EEG
06:04

Functional Mapping with Simultaneous MEG and EEG

Published on: June 14, 2010

18.0K
Concurrent EEG and Functional MRI Recording and Integration Analysis for Dynamic Cortical Activity Imaging
11:28

Concurrent EEG and Functional MRI Recording and Integration Analysis for Dynamic Cortical Activity Imaging

Published on: June 30, 2018

11.7K

Related Experiment Videos

Last Updated: Jul 12, 2025

Modeling the Functional Network for Spatial Navigation in the Human Brain
05:55

Modeling the Functional Network for Spatial Navigation in the Human Brain

Published on: October 13, 2023

1.1K
Functional Mapping with Simultaneous MEG and EEG
06:04

Functional Mapping with Simultaneous MEG and EEG

Published on: June 14, 2010

18.0K
Concurrent EEG and Functional MRI Recording and Integration Analysis for Dynamic Cortical Activity Imaging
11:28

Concurrent EEG and Functional MRI Recording and Integration Analysis for Dynamic Cortical Activity Imaging

Published on: June 30, 2018

11.7K

Area of Science:

  • Neuroscience
  • Topological Data Analysis
  • Data Science

Background:

  • Capturing large-scale brain activity dynamics can advance cognitive understanding.
  • Topological Data Analysis (TDA), particularly the Mapper algorithm, has been used to analyze high-resolution brain activity.
  • Mapper's sensitivity to parameter selection necessitates careful examination, especially with artifact-prone neuroimaging data.

Approach:

  • Investigated the impact of various parameter choices within the Mapper algorithm.
  • Utilized synthetic datasets with known structures and real functional Magnetic Resonance Imaging (fMRI) data.
  • Developed and released a software toolbox for parameter exploration in Mapper analysis.

Key Points:

  • Mapper algorithm performance is significantly influenced by parameter selection.
  • Parameter choices can obscure or reveal underlying structures in brain activity data.
  • Guidance and heuristics are provided for optimal Mapper parameter selection in neuroscience.

Conclusions:

  • Thorough examination of Mapper parameters is crucial for reliable analysis of brain dynamics.
  • The study offers practical insights for applying TDA to neuroimaging data.
  • The released toolbox facilitates reproducible and robust TDA in neuroscience research.