SHIVA-CMB: a deep-learning-based robust cerebral microbleed segmentation tool trained on multi-source T2*GRE- and susceptibility-weighted MRI
| dc.rights.license | open | en_US |
| hal.structure.identifier | Institut des Maladies Neurodégénératives [Bordeaux] [IMN] | |
| hal.structure.identifier | Bordeaux population health [BPH] | |
| dc.contributor.author | TSUCHIDA, Ami | |
| dc.contributor.author | GOUBET, Martin | |
| dc.contributor.author | BOUTINAUD, Philippe | |
| hal.structure.identifier | Institut des Maladies Neurodégénératives [Bordeaux] [IMN] | |
| hal.structure.identifier | Bordeaux population health [BPH] | |
| dc.contributor.author | ASTAFEVA, Iana | |
| dc.contributor.author | NOZAIS, Victor | |
| dc.contributor.author | HERVÉ, Pierre-Yves | |
| hal.structure.identifier | Neurocentre Magendie : Physiopathologie de la Plasticité Neuronale [U1215 Inserm - UB] | |
| dc.contributor.author | TOURDIAS, Thomas | |
| hal.structure.identifier | Bordeaux population health [BPH] | |
| dc.contributor.author | DEBETTE, Stephanie | |
| hal.structure.identifier | Institut des Maladies Neurodégénératives [Bordeaux] [IMN] | |
| dc.contributor.author | JOLIOT, Marc | |
| dc.date.accessioned | 2025-01-06T13:09:22Z | |
| dc.date.available | 2025-01-06T13:09:22Z | |
| dc.date.issued | 2024-12-28 | |
| dc.identifier.issn | 2045-2322 | en_US |
| dc.identifier.uri | https://oskar-bordeaux.fr/handle/20.500.12278/204143 | |
| dc.description.abstractEn | Cerebral microbleeds (CMB) represent a feature of cerebral small vessel disease (cSVD), a prominent vascular contributor to age-related cognitive decline, dementia, and stroke. They are visible as spherical hypointense signals on T2*- or susceptibility-weighted magnetic resonance imaging (MRI) sequences. An increasing number of automated CMB detection methods being proposed are based on supervised deep learning (DL). Yet, the lack of open sharing of pre-trained models hampers the practical application and evaluation of these methods beyond specific data sources used in each study. Here, we present the SHIVA-CMB detector, a 3D Unet-based tool trained on 450 scans taken from seven acquisitions in six different cohort studies that included both T2*- and susceptibility-weighted MRI. In a held-out test set of 96 scans, it achieved the sensitivity, precision, and F1 (or Dice similarity coefficient) score of 0.67, 0.82, and 0.74, with less than one false positive detection per image (FPavg = 0.6) and per CMB (FPcmb = 0.15). It achieved a similar level of performance in a separate, evaluation-only dataset with acquisitions never seen during the training (0.67, 0.91, 0.77, 0.5, 0.07 for the sensitivity, precision, F1 score, FPavg, and FPcmb). Further demonstrating its generalizability, it showed a high correlation (Pearson's R = 0.89, p < 0.0001) with a visual count by expert raters in another independent set of 1992 T2*-weighted scans from a large, multi-center cohort study. Importantly, we publicly share both the pipeline ( https://github.com/pboutinaud/SHiVAi/ ) and pre-trained models ( https://github.com/pboutinaud/SHIVA-CMB/ ) to the research community to promote the active application and evaluation of our tool. We believe this effort will help accelerate research on the pathophysiology and functional consequences of CMB by enabling rapid characterization of CMB in large-scale studies. | |
| dc.description.sponsorship | Stopping cognitive decline and dementia by fighting covert cerebral small vessel disease - ANR-18-RHUS-0002 | en_US |
| dc.description.sponsorship | Vaincre les maladies vasculaires cérébrales par un nouveau paradigme de prévention de précision et d'innovation thérapeutique | en_US |
| dc.description.sponsorship | Laboratoire pour les applications en imagerie biomédicale - ANR-16-LCV2-0006 | en_US |
| dc.language.iso | EN | en_US |
| dc.rights | Attribution-NonCommercial-NoDerivs 3.0 United States | * |
| dc.rights.uri | http://creativecommons.org/licenses/by-nc-nd/3.0/us/ | * |
| dc.title.en | SHIVA-CMB: a deep-learning-based robust cerebral microbleed segmentation tool trained on multi-source T2*GRE- and susceptibility-weighted MRI | |
| dc.title.alternative | Sci Rep | en_US |
| dc.type | Article de revue | en_US |
| dc.identifier.doi | 10.1038/s41598-024-81870-5 | en_US |
| dc.subject.hal | Sciences du Vivant [q-bio]/Santé publique et épidémiologie | en_US |
| dc.identifier.pubmed | 39730628 | en_US |
| bordeaux.journal | Scientific Reports | en_US |
| bordeaux.page | 30901 | en_US |
| bordeaux.volume | 14 | en_US |
| bordeaux.hal.laboratories | Bordeaux Population Health Research Center (BPH) - UMR 1219 | en_US |
| bordeaux.issue | 1 | en_US |
| bordeaux.institution | Université de Bordeaux | en_US |
| bordeaux.institution | INSERM | en_US |
| bordeaux.institution | CNRS | |
| bordeaux.team | ELEANOR_BPH | en_US |
| bordeaux.peerReviewed | oui | en_US |
| bordeaux.inpress | non | en_US |
| bordeaux.import.source | crossref | |
| hal.identifier | hal-04867101 | |
| hal.version | 1 | |
| hal.date.transferred | 2025-01-22T10:36:51Z | |
| hal.popular | non | en_US |
| hal.audience | Internationale | en_US |
| hal.export | true | |
| workflow.import.source | crossref | |
| dc.rights.cc | Pas de Licence CC | en_US |
| bordeaux.COinS | ctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=Scientific%20Reports&rft.date=2024-12-28&rft.volume=14&rft.issue=1&rft.spage=30901&rft.epage=30901&rft.eissn=2045-2322&rft.issn=2045-2322&rft.au=TSUCHIDA,%20Ami&GOUBET,%20Martin&BOUTINAUD,%20Philippe&ASTAFEVA,%20Iana&NOZAIS,%20Victor&rft.genre=article |
