Evidence map›Paper›PMID 40811747›Full record

ArticlePLoS computational biology2025

A software ecosystem for brain tractometry processing, analysis, and insight.

John Kruper, Adam Richie-Halford, Joanna Qiao, Asa Gilmore, Kelly Chang, Mareike Grotheer, Ethan Roy, Sendy Caffarra, Teresa Gomez, Sam Chou and 6 more

Abstract read
In one paragraph

Article in PLoS computational biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

11 citing papers in PubMed.

  1. Anatomy of the Visual Word Form Area in Dyslexia.bioRxiv : the preprint server for biology · 2026
    Article
  2. Neonatal brain-age models in full- and preterm infants.Developmental cognitive neuroscience · 2026
    Article
  3. Review
  4. Article
  5. Article
  6. Article
  7. Neonatal brain-age models in full- and preterm infants.bioRxiv : the preprint server for biology · 2026
    Article
  8. Review
  9. Free water elimination tractometry for aging brains.Imaging neuroscience (Cambridge, Mass.) · 2025
    Article
  10. Article
  11. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

16 authors.

John KruperDepartment of Psychology, University of Washington, Seattle, Washington, United States of America.ORCID 0000-0003-0081-391X
Adam Richie-HalfordGraduate School of Education, Stanford University, Stanford, California, United States of America.
Joanna QiaoDepartment of Psychology, University of Washington, Seattle, Washington, United States of America.
Asa GilmoreDepartment of Psychology, University of Washington, Seattle, Washington, United States of America.
Kelly ChangDepartment of Psychology, University of Washington, Seattle, Washington, United States of America.ORCID 0000-0001-5385-2782
Mareike GrotheerDepartment of Psychology, Phillips-Universität Marburg, Marburg, Germany.
Ethan RoyGraduate School of Education, Stanford University, Stanford, California, United States of America.
Sendy CaffarraDepartment of Biomedical, Metabolic and Neural Sciences, University of Modena and Reggio Emilia, Modena, Italy.
Teresa GomezDepartment of Psychology, University of Washington, Seattle, Washington, United States of America.
Sam ChouDepartment of Psychology, University of Washington, Seattle, Washington, United States of America.ORCID 0009-0006-9721-3257
Matthew CieslakPenn/CHOP Lifespan Brain Institute, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America.
Serge KoudoroLuddy School of Informatics, Computing, and Engineering, Indiana University, Bloomington, Indiana, United States of America.
Eleftherios GaryfallidisLuddy School of Informatics, Computing, and Engineering, Indiana University, Bloomington, Indiana, United States of America.
Theodore D SatterthwaitePenn/CHOP Lifespan Brain Institute, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America.
Jason D YeatmanGraduate School of Education, Stanford University, Stanford, California, United States of America.
Ariel RokemDepartment of Psychology, University of Washington, Seattle, Washington, United States of America.ORCID 0000-0003-0679-1985

Funding

Longitudinal Mapping of Network Development Underlying Executive Dysfunction in AdolescenceR01MH113550 · NIMH · UNIVERSITY OF PENNSYLVANIA · PI Danielle Smith Bassett, Theodore Satterthwaite · 2018 to 2026
$6.9M
Personalized Functional Network Modeling to Characterize and Predict Psychopathology in YouthR01EB022573 · NIBIB · UNIVERSITY OF PENNSYLVANIA · PI Yong Fan, Theodore Satterthwaite · 2016 to 2026
$6.0M
Inter-modal Coupling Image AnalyticsR01MH112847 · NIMH · UNIVERSITY OF PENNSYLVANIA · PI Theodore Satterthwaite, Russell Takeshi Shinohara · 2017 to 2026
$5.9M
Precision mapping of individualized executive networks in youthR37MH125829 · NIMH · UNIVERSITY OF MINNESOTA · PI Damien A Fair, Theodore Satterthwaite · 2021 to 2026
$4.7M
Reproducible imaging-based brain growth charts for psychiatryR01MH120482 · NIMH · UNIVERSITY OF PENNSYLVANIA · PI MILHAM, MICHAEL PETER, SATTERTHWAITE, THEODORE · 2019 to 2023
$3.5M
CRCNS: Community-supported open-source software for computational neuroanatomyR01EB027585 · NIBIB · TRUSTEES OF INDIANA UNIVERSITY · PI Eleftherios Garyfallidis · 2018 to 2026
$2.6M
CRCNS: Integrating gray and white matter data to understand the organization of human visual cortexR01EY033628 · NEI · UNIVERSITY OF WASHINGTON · PI Noah C Benson, JONATHAN A WINAWER · 2021 to 2026
$1.7M
NIPreps: integrating neuroimaging preprocessing workflows across modalities, populations, and speciesRF1MH121867 · NIMH · STANFORD UNIVERSITY · PI POLDRACK, RUSSELL A, ROKEM, ARIEL SHALOM · 2021 to 2022
$1.6M
A data science toolbox for analysis of Human Connectome Project diffusion MRIRF1MH121868 · NIMH · UNIVERSITY OF WASHINGTON · PI ROKEM, ARIEL SHALOM · 2019 to 2019
$707k
NEI NIH HHS R01 EY033628NIBIB NIH HHS R01 EB022573NIBIB NIH HHS R01 EB027585NIMH NIH HHS R01 MH112847NIMH NIH HHS R01 MH113550NIMH NIH HHS R01 MH120482NIMH NIH HHS R37 MH125829NIMH NIH HHS RF1 MH121867NIMH NIH HHS RF1 MH121868
6 · The paper itself

Abstract

Tractometry uses diffusion-weighted magnetic resonance imaging (dMRI) to assess physical properties of brain connections. Here, we present an integrative ecosystem of software that performs all steps of tractometry: post-processing of dMRI data, delineation of major white matter pathways, and modeling of the tissue properties within them. This ecosystem also provides a set of interoperable and extensible tools for visualization and interpretation of the results that extract insights from these measurements. These include novel machine learning and statistical analysis methods adapted to the characteristic structure of tract-based data. We benchmark the performance of these statistical analysis methods in different datasets and analysis tasks, including hypothesis testing on group differences and predictive analysis of subject age. We also demonstrate that computational advances implemented in the software offer orders of magnitude of acceleration. Taken together, these open-source software tools-freely available at https://tractometry.org-provide a transformative environment for the analysis of dMRI data.

Indexed as

BrainDiffusion Magnetic Resonance ImagingImage Processing, Computer-AssistedSoftwareComputational BiologyHumansMachine LearningWhite Matter

Identifiers

PMID40811747
PMCPMC12373284

What OpenQuestion holds

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LicenceCC BY
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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.