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

Functional connectivity during drawing after upper extremity peripheral nerve surgery: enhanced connectivity between motor and visuomotor-parietal regions.

bioRxiv : the preprint server for biology·2026
Same author

Development of an Inventory to Identify Psychosocial Factors Influencing Hand Usage: the CHUC.

medRxiv : the preprint server for health sciences·2026
Same author

Neural mechanisms of handedness for precision drawing: hand-dependent engagement of cortical networks for bimanual control and tool use.

bioRxiv : the preprint server for biology·2025
Same author

Reducing Inter-Individual Differences in Task fMRI Preprocessing with OGRE (One-Step General Registration and Extraction) Preprocessing.

Neuroinformatics·2025
Same author

M1 recruitment during interleaved practice is important for encoding, not just consolidation, of skill memory.

NPJ science of learning·2024
Same author

Healthy adults favor stable left/right hand choices over performance at an unconstrained reach-to-grasp task.

Experimental brain research·2024
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 15, 2025

Simultaneous Data Collection of fMRI and fNIRS Measurements Using a Whole-Head Optode Array and Short-Distance Channels
08:19

Simultaneous Data Collection of fMRI and fNIRS Measurements Using a Whole-Head Optode Array and Short-Distance Channels

Published on: October 20, 2023

1.1K

Reducing individual differences in task fMRI with OGRE (One-step General Registration and Extraction) preprocessing.

Mark P McAvoy1, Lei Liu2, Ruiwen Zhou2

  • 1Program in Occupational Therapy, Washington University School of Medicine, St. Louis, MO, United States.

Biorxiv : the Preprint Server for Biology
|October 2, 2023
PubMed
Summary
This summary is machine-generated.

Integrating FreeSurfer tools with FSL analysis via the OGRE pipeline improves functional MRI (fMRI) preprocessing. This approach reduces variability and enhances motor cortex activation detection in task-based fMRI studies.

Keywords:
brainbrain mappingfMRIhumansimage analysis pipelinemagnetic resonance imagingsoftware

More Related Videos

Inter-Brain Synchrony in Open-Ended Collaborative Learning: An fNIRS-Hyperscanning Study
04:44

Inter-Brain Synchrony in Open-Ended Collaborative Learning: An fNIRS-Hyperscanning Study

Published on: July 21, 2021

4.2K
Measurement of Fronto-limbic Activity Using an Emotional Oddball Task in Children with Familial High Risk for Schizophrenia
13:08

Measurement of Fronto-limbic Activity Using an Emotional Oddball Task in Children with Familial High Risk for Schizophrenia

Published on: December 2, 2015

9.0K

Related Experiment Videos

Last Updated: Jul 15, 2025

Simultaneous Data Collection of fMRI and fNIRS Measurements Using a Whole-Head Optode Array and Short-Distance Channels
08:19

Simultaneous Data Collection of fMRI and fNIRS Measurements Using a Whole-Head Optode Array and Short-Distance Channels

Published on: October 20, 2023

1.1K
Inter-Brain Synchrony in Open-Ended Collaborative Learning: An fNIRS-Hyperscanning Study
04:44

Inter-Brain Synchrony in Open-Ended Collaborative Learning: An fNIRS-Hyperscanning Study

Published on: July 21, 2021

4.2K
Measurement of Fronto-limbic Activity Using an Emotional Oddball Task in Children with Familial High Risk for Schizophrenia
13:08

Measurement of Fronto-limbic Activity Using an Emotional Oddball Task in Children with Familial High Risk for Schizophrenia

Published on: December 2, 2015

9.0K

Area of Science:

  • Neuroimaging
  • Computational Neuroscience

Background:

  • Volumetric analysis is crucial for task-related functional MRI (fMRI).
  • FSL is a widely used software package for fMRI analysis.
  • The integration of alternative preprocessing tools with FSL remains underexplored.

Purpose of the Study:

  • To develop and evaluate the One-step General Registration and Extraction (OGRE) pipeline.
  • To assess the benefits of integrating FreeSurfer brain extraction and one-step resampling with FSL for fMRI analysis.

Main Methods:

  • Developed the OGRE pipeline for FreeSurfer brain extraction and simultaneous registration/motion correction.
  • Compared OGRE with standard FSL and fMRIPrep preprocessing pipelines.
  • Analyzed fMRI data from 39 adult volunteers performing a precision drawing task.

Main Results:

  • All three preprocessing approaches yielded broadly comparable results.
  • OGRE preprocessing demonstrated reduced inter-individual variability across the brain.
  • OGRE identified greater activation in the primary motor cortex contralateral to movement.

Conclusions:

  • FreeSurfer tools and one-step resampling enhance FSL's volumetric analysis of fMRI data.
  • The OGRE pipeline offers a practical method for improved fMRI preprocessing and analysis with FSL.