Evidence map›Paper›PMID 40937688›Full record

ReviewJournal of neuroimaging : official journal of the American Society of Neuroimaging

A Novel Convolutional Neural Network for Automated Multiple Sclerosis Brain Lesion Segmentation.

Emma Dereskewicz, Francesco La Rosa, Jonadab Dos Santos Silva, Edward Sizer, Amit Kohli, Maxence Wynen, William A Mullins, Pietro Maggi, Sarah Levy, Kamso Onyemeh and 7 more

Erratum issuedAbstract readReview
In one paragraph

Review in Journal of neuroimaging : official journal of the American Society of Neuroimaging. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 10 papers.

0numbers the graph read from it
0cells of the map it votes in
10citing 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

10 citing papers in PubMed.

  1. Article
  2. Article
  3. Review
  4. Observational
  5. Review
  6. Article
  7. Article
  8. A Novel Convolutional Neural Network for Automated Multiple Sclerosis Brain Lesion Segmentation.Journal of neuroimaging : official journal of the American Society of Neuroimaging
    Review
  9. Review
  10. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

17 authors.

Emma DereskewiczDepartment of Neurology, Icahn School of Medicine at Mount Sinai, New York, New York, USA.ORCID https://orcid.org/0009-0009-1177-2886
Francesco La RosaDepartment of Neurology, Icahn School of Medicine at Mount Sinai, New York, New York, USA.ORCID https://orcid.org/0000-0002-9224-4664
Jonadab Dos Santos SilvaDepartment of Neurology, Icahn School of Medicine at Mount Sinai, New York, New York, USA.ORCID https://orcid.org/0000-0002-4216-333X
Edward SizerDepartment of Neurology, Icahn School of Medicine at Mount Sinai, New York, New York, USA.
Amit KohliDepartment of Neurology, Icahn School of Medicine at Mount Sinai, New York, New York, USA.
Maxence WynenICTeam, Université Catholique De Louvain, Louvain-la-Neuve, Belgium.
William A MullinsTranslational Neuroradiology Section, National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, Maryland, USA.
Pietro MaggiNeuroinflammation Imaging Lab, Université Catholique, de Louvain, Brussels, Belgium.
Sarah LevyDepartment of Neurology, Icahn School of Medicine at Mount Sinai, New York, New York, USA.
Kamso OnyemehDepartment of Neurology, Icahn School of Medicine at Mount Sinai, New York, New York, USA.
Batuhan AyciDepartment of Neurology, Icahn School of Medicine at Mount Sinai, New York, New York, USA.
Andrew J SolomonDepartment of Neurology, University of Vermont, Burlington, Vermont, USA.
Jakob AssländerCenter for Biomedical Imaging, Department of Radiology, New York University School of Medicine, New York, New York, USA.
Omar Al-LouziTranslational Neuroradiology Section, National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, Maryland, USA.
Daniel S ReichTranslational Neuroradiology Section, National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, Maryland, USA.
James SumowskiDepartment of Neurology, Icahn School of Medicine at Mount Sinai, New York, New York, USA.
Erin S BeckDepartment of Neurology, Icahn School of Medicine at Mount Sinai, New York, New York, USA.ORCID https://orcid.org/0000-0001-7839-7958

Funding

Conduits: Mount Sinai Health System Translational Science HubUL1TR004419 · NCATS · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI Rosalind J Wright · 2022 to 2026
$46.4M
TR&D 4: Revealing Microstructure: Biophysical modeling and validation for discovery and clinical careP41EB017183 · NIBIB · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI Christopher M Collins · 2014 to 2026
$19.3M
COVID and Translational Science supercomputer (CATS)S10OD030463 · OD · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI KOVATCH, PATRICIA · 2021 to 2021
$2.0M
Big Omics Data Engine 2 SupercomputerS10OD026880 · OD · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI KOVATCH, PATRICIA · 2019 to 2019
$2.0M
Quantification of Multi-Compartment T1 Relaxation and Magnetization Transfer in Biological Tissue: From Biophysics to Biomarkers for Multiple SclerosisR01NS131948 · NINDS · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI Jakob Asslaender · 2024 to 2026
$1.8M
Computational Model of Neurocognitive Impairment in Multiple SclerosisR01NS136523 · NINDS · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI Joshua Sandry, James Francis Sumowski · 2025 to 2026
$1.2M
Bristol Myers Squibb FoundationNational Multiple Sclerosis Society FAN-1807-32163NCATS NIH HHS UL1 TR004419NCATS NIH HHS UL1TR004419NIBIB NIH HHS P41 EB017183NIH HHS R01NS136523NIH HHS S10 OD026880NIH HHS S10 OD030463NINDS NIH HHS 1Z1ANS003119NINDS NIH HHS R01 NS131948NINDS NIH HHS R01 NS136523Office of the Assistant Secretary of Defense for Health Affairs, Multiple Sclerosis Research Program HT9425-23-1-0571Office of the Assistant Secretary of Defense for Health Affairs, Multiple Sclerosis Research Program HT9425-24-1-0857ORIP NIH HHS S10OD026880ORIP NIH HHS S10OD030463Schmidt SciencesSwiss National Science Foundation Postdoc Mobility Fellowship P500PB_206833The Walloon RegionTRAIL
6 · The paper itself

Abstract

background and purposeAssessment of brain lesions on magnetic resonance imaging (MRI) is crucial for research in multiple sclerosis (MS). Manual segmentation is time-consuming and inconsistent. We aimed to develop an automated MS lesion segmentation algorithm for T2-weighted fluid-attenuated inversion recovery (FLAIR) MRI.

methodsWe developed FLAIR Lesion Analysis in Multiple Sclerosis (FLAMeS), a deep learning-based MS lesion segmentation algorithm based on the nnU-Net 3D full-resolution U-Net and trained on 668 FLAIR 1.5 and 3 tesla scans from persons with MS. FLAMeS was evaluated on three external datasets: MSSEG-2 (n = 14), MSLesSeg (n = 51), and a clinical cohort (n = 10), and compared to SAMSEG, LST-LPA, and LST-AI. Performance was assessed qualitatively by two blinded experts and quantitatively by comparing automated and ground truth lesion masks using standard segmentation metrics.

resultsIn a blinded qualitative review of 20 scans, both raters selected FLAMeS as the most accurate segmentation in 15 cases, with one rater favoring FLAMeS in two additional cases. Across all testing datasets, FLAMeS achieved a mean Dice score of 0.74, a true positive rate of 0.84, and an F1 score of 0.78, consistently outperforming the benchmark methods. For other metrics, including positive predictive value, relative volume difference, and false positive rate, FLAMeS performed similarly to or better than benchmark methods. Most lesions missed by FLAMeS were smaller than 10 mm

conclusionsFLAMeS is an accurate, robust method for MS lesion segmentation that outperforms other publicly available methods.

Indexed as

BrainImage Interpretation, Computer-AssistedMagnetic Resonance ImagingMultiple SclerosisNeural Networks, ComputerAdultAlgorithmsConvolutional Neural NetworksDeep LearningFemaleHumansMaleMiddle Agedlesion segmentationmachine learningMRImultiple sclerosis

Identifiers

PMID40937688
PMCPMC12426979

What OpenQuestion holds

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LicenceCC BY-NC
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Registered trials

None linked

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.