Jose Bernal

Dr. Jose Bernal

University of Edinburgh
orcid

Research Focus & Metrics

Academic Career Length

13Years (2014-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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5 December 2022 in Nature Communications
Verified
Journal Article
Open access
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SPSarthak Pati
Sarthak Pati
Ujjwal BaidUjjwal Baid
Ujjwal Baid
BEBrandon Edwards
Brandon Edwards
MSMicah Sheller
Micah Sheller
SWShih-Han Wang
Shih-Han Wang
Spyridon BakasSpyridon Bakas
Spyridon Bakas
Although machine learning (ML) has shown promise across disciplines, out-of-sample generalizability is concerning. This is currently addressed by sharing multi-site data, but such centralization is challenging/infeasible to scale due to various limitations. Federated ML (FL) provides an alternative paradigm for accurate and generalizable ML, by only sharing numerical model updates. Here we present the largest FL study to-date, involving data from 71 sites across 6 continents, to generate an automatic tumor boundary detector for the rare disease of glioblastoma, reporting the largest such dataset in the literature (n = 6, 314). We demonstrate a 33% delineation improvement for the surgically targetable tumor, and 23% for the complete tumor extent, over a publicly trained model. We anticipate our study to: 1) enable more healthcare studies informed by large diverse data, ensuring meaningful results for rare diseases and underrepresented populations, 2) facilitate further analyses for glioblastoma by releasing our consensus model, and 3) demonstrate the FL effectiveness at such scale and task-complexity as a paradigm shift for multi-site collaborations, alleviating the need for data-sharing.

1 April 2019 in Artificial Intelligence in Medicine
Verified
Journal Article
Closed access
JBJose Bernal
Jose Bernal
KKKaisar Kushibar
Kaisar Kushibar
DADaniel S. Asfaw
Daniel S. Asfaw
SVSergi Valverde
Sergi Valverde
AOArnau Oliver
Arnau Oliver
XLXavier Llado
Xavier Llado

10 August 2023 in Alzheimer's & Dementia
Verified
Journal Article
Open access
RBRobin J. Borchert
Robin J. Borchert
Tiago AzevedoTiago Azevedo
Tiago Azevedo
ABAmanpreet Badhwar
Amanpreet Badhwar
JBJose Bernal
Jose Bernal
MBMatthew Betts
Matthew Betts
TRTimothy Rittman
Timothy Rittman
Introduction: Artificial intelligence (AI) and neuroimaging offer new opportunities for diagnosis and prognosis of dementia.Methods: We systematically reviewed studies reporting AI for neuroimaging in diagnosis and/or prognosis of cognitive neurodegenerative diseases.Results: A total of 255 studies were identified. Most studies relied on the Alzheimer's Disease Neuroimaging Initiative dataset. Algorithmic classifiers were the most commonly used AI method (48%) and discriminative models performed best for differentiating Alzheimer's disease from controls. The accuracy of algorithms varied with the patient cohort, imaging modalities, and stratifiers used. Few studies performed validation in an independent cohort.Discussion: The literature has several methodological limitations including lack of sufficient algorithm development descriptions and standard definitions. We make recommendations to improve model validation including addressing key clinical questions, providing sufficient description of AI methods and validating findings in independent datasets. Collaborative approaches between experts in AI and medicine will help achieve the promising potential of AI tools in practice.Highlights: There has been a rapid expansion in the use of machine learning for diagnosis and prognosis in neurodegenerative disease Most studies (71%) relied on the Alzheimer's Disease Neuroimaging Initiative (ADNI) dataset with no other individual dataset used more than five times There has been a recent rise in the use of more complex discriminative models (e.g., neural networks) that performed better than other classifiers for classification of AD vs healthy controls We make recommendations to address methodological considerations, addressing key clinical questions, and validation We also make recommendations for the field more broadly to standardize outcome measures, address gaps in the literature, and monitor sources of bias

1 August 2018 in Medical Image Analysis
Verified
Journal Article
Open access
KKKaisar Kushibar
Kaisar Kushibar
SVSergi Valverde
Sergi Valverde
SGSandra González-Villà
Sandra González-Villà
JBJose Bernal
Jose Bernal
MCMariano Cabezas
Mariano Cabezas
XLXavier Llado
Xavier Llado
Sub-cortical brain structure segmentation in Magnetic Resonance Images (MRI) has attracted the interest of the research community for a long time as morphological changes in these structures are related to different neurodegenerative disorders. However, manual segmentation of these structures can be tedious and prone to variability, highlighting the need for robust automated segmentation methods. In this paper, we present a novel convolutional neural network based approach for accurate segmentation of the sub-cortical brain structures that combines both convolutional and prior spatial features for improving the segmentation accuracy. In order to increase the accuracy of the automated segmentation, we propose to train the network using a restricted sample selection to force the network to learn the most difficult parts of the structures. We evaluate the accuracy of the proposed method on the public MICCAI 2012 challenge and IBSR 18 datasets, comparing it with different traditional and deep learning state-of-the-art methods. On the MICCAI 2012 dataset, our method shows an excellent performance comparable to the best participant strategy on the challenge, while performing significantly better than state-of-the-art techniques such as FreeSurfer and FIRST. On the IBSR 18 dataset, our method also exhibits a significant increase in the performance with respect to not only FreeSurfer and FIRST, but also comparable or better results than other recent deep learning approaches. Moreover, our experiments show that both the addition of the spatial priors and the restricted sampling strategy have a significant effect on the accuracy of the proposed method. In order to encourage the reproducibility and the use of the proposed method, a public version of our approach is available to download for the neuroimaging community.

1 October 2020 in Computer Methods and Programs in Biomedicine
Verified
Journal Article
Closed access
ACAlbert Clèrigues
Albert Clèrigues
SVSergi Valverde
Sergi Valverde
JBJose Bernal
Jose Bernal
JFJordi Freixenet
Jordi Freixenet
AOArnau Oliver
Arnau Oliver
XLXavier Lladó
Xavier Lladó

11 October 2022 in Applied Sciences
Verified
Journal Article
Open access
PDF file
JBJose Bernal
Jose Bernal
CMClaudia Mazo
Claudia Mazo
Although it is widely assumed that Artificial Intelligence (AI) will revolutionise healthcare in the near future, considerable progress must yet be made in order to gain the trust of healthcare professionals and patients. Improving AI transparency is a promising avenue for addressing such trust issues. However, transparency still lacks maturation and definitions. We seek to answer what challenges do experts and professionals in computing and healthcare identify concerning transparency of AI in healthcare? Here, we examine AI transparency in healthcare from five angles: interpretability, privacy, security, equity, and intellectual property. We respond to this question based on recent literature discussing the transparency of AI in healthcare and on an international online survey we sent to professionals working in computing and healthcare and potentially within AI. We collected responses from 40 professionals around the world. Overall, the survey results and current state of the art suggest key problems are a generalised lack of information available to the general public, a lack of understanding of transparency aspects covered in this work, and a lack of involvement of all stakeholders in the development of AI systems. We propose a set of recommendations, the implementation of which can enhance the transparency of AI in healthcare.