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Martinez-Murcia FJ, Arco JE, Jimenez-Mesa C, Segovia F, Illan IA, Ramirez J, Gorriz JM. Bridging Imaging and Clinical Scores in Parkinson's Progression via Multimodal Self-Supervised Deep Learning. Int J Neural Syst 2024; 34:2450043. [PMID: 38770651 DOI: 10.1142/s0129065724500436] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/22/2024]
Abstract
Neurodegenerative diseases pose a formidable challenge to medical research, demanding a nuanced understanding of their progressive nature. In this regard, latent generative models can effectively be used in a data-driven modeling of different dimensions of neurodegeneration, framed within the context of the manifold hypothesis. This paper proposes a joint framework for a multi-modal, common latent generative model to address the need for a more comprehensive understanding of the neurodegenerative landscape in the context of Parkinson's disease (PD). The proposed architecture uses coupled variational autoencoders (VAEs) to joint model a common latent space to both neuroimaging and clinical data from the Parkinson's Progression Markers Initiative (PPMI). Alternative loss functions, different normalization procedures, and the interpretability and explainability of latent generative models are addressed, leading to a model that was able to predict clinical symptomatology in the test set, as measured by the unified Parkinson's disease rating scale (UPDRS), with R2 up to 0.86 for same-modality and 0.441 cross-modality (using solely neuroimaging). The findings provide a foundation for further advancements in the field of clinical research and practice, with potential applications in decision-making processes for PD. The study also highlights the limitations and capabilities of the proposed model, emphasizing its direct interpretability and potential impact on understanding and interpreting neuroimaging patterns associated with PD symptomatology.
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Affiliation(s)
- Francisco J Martinez-Murcia
- Department of Signal Processing, Networking and Communications, University of Granada, Granada, Spain
- Center for Advanced Studies, Ludwig-Maximilien Universität München, München, Germany
- Andalusian Research Institute in Data Science and Computational Intelligence (DaSCI), University of Granada, Granada, Spain
| | - Juan Eloy Arco
- Department of Signal Processing, Networking and Communications, University of Granada, Granada, Spain
- Andalusian Research Institute in Data Science and Computational Intelligence (DaSCI), University of Granada, Granada, Spain
| | - Carmen Jimenez-Mesa
- Department of Signal Processing, Networking and Communications, University of Granada, Granada, Spain
- Andalusian Research Institute in Data Science and Computational Intelligence (DaSCI), University of Granada, Granada, Spain
| | - Fermin Segovia
- Department of Signal Processing, Networking and Communications, University of Granada, Granada, Spain
- Andalusian Research Institute in Data Science and Computational Intelligence (DaSCI), University of Granada, Granada, Spain
| | - Ignacio A Illan
- Department of Signal Processing, Networking and Communications, University of Granada, Granada, Spain
- Andalusian Research Institute in Data Science and Computational Intelligence (DaSCI), University of Granada, Granada, Spain
| | - Javier Ramirez
- Department of Signal Processing, Networking and Communications, University of Granada, Granada, Spain
- Andalusian Research Institute in Data Science and Computational Intelligence (DaSCI), University of Granada, Granada, Spain
| | - Juan Manuel Gorriz
- Department of Signal Processing, Networking and Communications, University of Granada, Granada, Spain
- Center for Advanced Studies, Ludwig-Maximilien Universität München, München, Germany
- Andalusian Research Institute in Data Science and Computational Intelligence (DaSCI), University of Granada, Granada, Spain
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2
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Carè M, Chiappalone M, Cota VR. Personalized strategies of neurostimulation: from static biomarkers to dynamic closed-loop assessment of neural function. Front Neurosci 2024; 18:1363128. [PMID: 38516316 PMCID: PMC10954825 DOI: 10.3389/fnins.2024.1363128] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2023] [Accepted: 02/22/2024] [Indexed: 03/23/2024] Open
Abstract
Despite considerable advancement of first choice treatment (pharmacological, physical therapy, etc.) over many decades, neurological disorders still represent a major portion of the worldwide disease burden. Particularly concerning, the trend is that this scenario will worsen given an ever expanding and aging population. The many different methods of brain stimulation (electrical, magnetic, etc.) are, on the other hand, one of the most promising alternatives to mitigate the suffering of patients and families when conventional treatment fall short of delivering efficacious treatment. With applications in virtually all neurological conditions, neurostimulation has seen considerable success in providing relief of symptoms. On the other hand, a large variability of therapeutic outcomes has also been observed, particularly in the usage of non-invasive brain stimulation (NIBS) modalities. Borrowing inspiration and concepts from its pharmacological counterpart and empowered by unprecedented neurotechnological advancement, the neurostimulation field has seen in recent years a widespread of methods aimed at the personalization of its parameters, based on biomarkers of the individuals being treated. The rationale is that, by taking into account important factors influencing the outcome, personalized stimulation can yield a much-improved therapy. Here, we review the literature to delineate the state-of-the-art of personalized stimulation, while also considering the important aspects of the type of informing parameter (anatomy, function, hybrid), invasiveness, and level of development (pre-clinical experimentation versus clinical trials). Moreover, by reviewing relevant literature on closed loop neuroengineering solutions in general and on activity dependent stimulation method in particular, we put forward the idea that improved personalization may be achieved when the method is able to track in real time brain dynamics and adjust its stimulation parameters accordingly. We conclude that such approaches have great potential of promoting the recovery of lost functions and enhance the quality of life for patients.
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Affiliation(s)
- Marta Carè
- IRCCS Ospedale Policlinico San Martino, Genova, Italy
| | - Michela Chiappalone
- Department of Informatics, Bioengineering, Robotics System Engineering (DIBRIS), University of Genova, Genova, Italy
- Rehab Technologies Lab, Istituto Italiano di Tecnologia, Genova, Italy
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3
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Qian Y, Alhaskawi A, Dong Y, Ni J, Abdalbary S, Lu H. Transforming medicine: artificial intelligence integration in the peripheral nervous system. Front Neurol 2024; 15:1332048. [PMID: 38419700 PMCID: PMC10899496 DOI: 10.3389/fneur.2024.1332048] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2023] [Accepted: 02/01/2024] [Indexed: 03/02/2024] Open
Abstract
In recent years, artificial intelligence (AI) has undergone remarkable advancements, exerting a significant influence across a multitude of fields. One area that has particularly garnered attention and witnessed substantial progress is its integration into the realm of the nervous system. This article provides a comprehensive examination of AI's applications within the peripheral nervous system, with a specific focus on AI-enhanced diagnostics for peripheral nervous system disorders, AI-driven pain management, advancements in neuroprosthetics, and the development of neural network models. By illuminating these facets, we unveil the burgeoning opportunities for revolutionary medical interventions and the enhancement of human capabilities, thus paving the way for a future in which AI becomes an integral component of our nervous system's interface.
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Affiliation(s)
- Yue Qian
- Rehabilitation Center, Hangzhou Wuyunshan Hospital (Hangzhou Institute of Health Promotion), Hangzhou, China
| | - Ahmad Alhaskawi
- Department of Orthopedics, The First Affiliated Hospital, Zhejiang University, Hangzhou, China
| | - Yanzhao Dong
- Department of Orthopedics, The First Affiliated Hospital, Zhejiang University, Hangzhou, China
| | - Juemin Ni
- Rehabilitation Center, Hangzhou Wuyunshan Hospital (Hangzhou Institute of Health Promotion), Hangzhou, China
| | - Sahar Abdalbary
- Department of Orthopedic Physical Therapy, Faculty of Physical Therapy, Nahda University in Beni Suef, Beni Suef, Egypt
| | - Hui Lu
- Department of Orthopedics, The First Affiliated Hospital, Zhejiang University, Hangzhou, China
- Alibaba-Zhejiang University Joint Research Center of Future Digital Healthcare, Zhejiang University, Hangzhou, China
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4
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Walder-Christensen K, Abdelaal K, Klein H, Thomas GE, Gallagher NM, Talbot A, Adamson E, Rawls A, Hughes D, Mague SD, Dzirasa K, Carlson DE. Electome network factors: Capturing emotional brain networks related to health and disease. CELL REPORTS METHODS 2024; 4:100691. [PMID: 38215761 PMCID: PMC10832286 DOI: 10.1016/j.crmeth.2023.100691] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/25/2023] [Revised: 10/17/2023] [Accepted: 12/21/2023] [Indexed: 01/14/2024]
Abstract
Therapeutic development for mental disorders has been slow despite the high worldwide prevalence of illness. Unfortunately, cellular and circuit insights into disease etiology have largely failed to generalize across individuals that carry the same diagnosis, reflecting an unmet need to identify convergent mechanisms that would facilitate optimal treatment. Here, we discuss how mesoscale networks can encode affect and other cognitive processes. These networks can be discovered through electrical functional connectome (electome) analysis, a method built upon explainable machine learning models for analyzing and interpreting mesoscale brain-wide signals in a behavioral context. We also outline best practices for identifying these generalizable, interpretable, and biologically relevant networks. Looking forward, translational electome analysis can span species and various moods, cognitive processes, or other brain states, supporting translational medicine. Thus, we argue that electome analysis provides potential translational biomarkers for developing next-generation therapeutics that exhibit high efficacy across heterogeneous disorders.
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Affiliation(s)
- Kathryn Walder-Christensen
- Department of Psychiatry and Behavioral Sciences, Duke University Medical Center, Durham, NC 27710, USA; Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA
| | - Karim Abdelaal
- Department of Neurobiology, Duke University Medical Center, Durham, NC 27710, USA; Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA
| | - Hunter Klein
- Department of Electrical and Computer Engineering, Duke University, Durham, NC 27710, USA
| | - Gwenaëlle E Thomas
- Department of Neurobiology, Duke University Medical Center, Durham, NC 27710, USA; Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA
| | - Neil M Gallagher
- Department of Psychiatry, Weill Cornell Medical Center, New York City, NY 10065, USA
| | - Austin Talbot
- Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA
| | - Elise Adamson
- Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA; Department of Biomedical Engineering, Duke University, Durham, NC 27710, USA
| | - Ashleigh Rawls
- Department of Pharmacology and Cancer Biology, Duke University Medical Center, Durham, NC 27710, USA; Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA
| | - Dalton Hughes
- Department of Neurobiology, Duke University Medical Center, Durham, NC 27710, USA; Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA
| | - Stephen D Mague
- Department of Psychiatry and Behavioral Sciences, Duke University Medical Center, Durham, NC 27710, USA; Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA
| | - Kafui Dzirasa
- Department of Psychiatry and Behavioral Sciences, Duke University Medical Center, Durham, NC 27710, USA; Department of Neurobiology, Duke University Medical Center, Durham, NC 27710, USA; Department of Neurosurgery, Duke University Medical Center, Durham, NC 27710, USA; Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA; Department of Biomedical Engineering, Duke University, Durham, NC 27710, USA.
| | - David E Carlson
- Department of Biostatistics and Bioinformatics, Duke University Medical Center, Durham, NC 27710, USA; Department of Civil and Environmental Engineering, Duke University, Durham, NC 27710, USA.
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5
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Mayor Torres JM, Medina-DeVilliers S, Clarkson T, Lerner MD, Riccardi G. Evaluation of interpretability for deep learning algorithms in EEG emotion recognition: A case study in autism. Artif Intell Med 2023; 143:102545. [PMID: 37673554 DOI: 10.1016/j.artmed.2023.102545] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2022] [Revised: 04/03/2023] [Accepted: 04/03/2023] [Indexed: 09/08/2023]
Abstract
Current models on Explainable Artificial Intelligence (XAI) have shown a lack of reliability when evaluating feature-relevance for deep neural biomarker classifiers. The inclusion of reliable saliency-maps for obtaining trustworthy and interpretable neural activity is still insufficiently mature for practical applications. These limitations impede the development of clinical applications of Deep Learning. To address, these limitations we propose the RemOve-And-Retrain (ROAR) algorithm which supports the recovery of highly relevant features from any pre-trained deep neural network. In this study we evaluated the ROAR methodology and algorithm for the Face Emotion Recognition (FER) task, which is clinically applicable in the study of Autism Spectrum Disorder (ASD). We trained a Convolutional Neural Network (CNN) from electroencephalography (EEG) signals and assessed the relevance of FER-elicited EEG features from individuals diagnosed with and without ASD. Specifically, we compared the ROAR reliability from well-known relevance maps such as Layer-Wise Relevance Propagation, PatternNet, Pattern-Attribution, and Smooth-Grad Squared. This study is the first to bridge previous neuroscience and ASD research findings to feature-relevance calculation for EEG-based emotion recognition with CNN in typically-development (TD) and in ASD individuals.
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Affiliation(s)
- Juan Manuel Mayor Torres
- Department of Information Engineering and Computer Science, University of Trento, Via Sommarive, Povo, Trento, 1328, Italy.
| | | | - Tessa Clarkson
- Department of Psychology, Temple University, 1801 N Broad St, Philadelphia, 19122, PA, USA
| | - Matthew D Lerner
- Department of Psychology, StonyBrook University, 100 Nicolls Rd, 11794, NY, USA
| | - Giuseppe Riccardi
- Department of Information Engineering and Computer Science, University of Trento, Via Sommarive, Povo, Trento, 1328, Italy
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6
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Amoroso N, Quarto S, La Rocca M, Tangaro S, Monaco A, Bellotti R. An eXplainability Artificial Intelligence approach to brain connectivity in Alzheimer's disease. Front Aging Neurosci 2023; 15:1238065. [PMID: 37719873 PMCID: PMC10501457 DOI: 10.3389/fnagi.2023.1238065] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2023] [Accepted: 08/08/2023] [Indexed: 09/19/2023] Open
Abstract
The advent of eXplainable Artificial Intelligence (XAI) has revolutionized the way human experts, especially from non-computational domains, approach artificial intelligence; this is particularly true for clinical applications where the transparency of the results is often compromised by the algorithmic complexity. Here, we investigate how Alzheimer's disease (AD) affects brain connectivity within a cohort of 432 subjects whose T1 brain Magnetic Resonance Imaging data (MRI) were acquired within the Alzheimer's Disease Neuroimaging Initiative (ADNI). In particular, the cohort included 92 patients with AD, 126 normal controls (NC) and 214 subjects with mild cognitive impairment (MCI). We show how graph theory-based models can accurately distinguish these clinical conditions and how Shapley values, borrowed from game theory, can be adopted to make these models intelligible and easy to interpret. Explainability analyses outline the role played by regions like putamen, middle and superior temporal gyrus; from a class-related perspective, it is possible to outline specific regions, such as hippocampus and amygdala for AD and posterior cingulate and precuneus for MCI. The approach is general and could be adopted to outline how brain connectivity affects specific brain regions.
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Affiliation(s)
- Nicola Amoroso
- Dipartimento di Farmacia-Scienze del Farmaco, Universitá degli Studi di Bari Aldo Moro, Bari, Italy
- Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy
| | - Silvano Quarto
- Dipartimento Interateneo di Fisica, Universitá degli Studi di Bari Aldo Moro, Bari, Italy
| | - Marianna La Rocca
- Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy
- Dipartimento Interateneo di Fisica, Universitá degli Studi di Bari Aldo Moro, Bari, Italy
| | - Sabina Tangaro
- Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy
- Dipartimento di Scienze del Suolo, della Pianta e degli Alimenti, Universitá degli Studi di Bari Aldo Moro, Bari, Italy
| | - Alfonso Monaco
- Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy
- Dipartimento Interateneo di Fisica, Universitá degli Studi di Bari Aldo Moro, Bari, Italy
| | - Roberto Bellotti
- Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy
- Dipartimento Interateneo di Fisica, Universitá degli Studi di Bari Aldo Moro, Bari, Italy
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7
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Alfeo AL, Zippo AG, Catrambone V, Cimino MGCA, Toschi N, Valenza G. From local counterfactuals to global feature importance: efficient, robust, and model-agnostic explanations for brain connectivity networks. COMPUTER METHODS AND PROGRAMS IN BIOMEDICINE 2023; 236:107550. [PMID: 37086584 DOI: 10.1016/j.cmpb.2023.107550] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/20/2023] [Revised: 04/14/2023] [Accepted: 04/14/2023] [Indexed: 05/03/2023]
Abstract
BACKGROUND Explainable artificial intelligence (XAI) is a technology that can enhance trust in mental state classifications by providing explanations for the reasoning behind artificial intelligence (AI) models outputs, especially for high-dimensional and highly-correlated brain signals. Feature importance and counterfactual explanations are two common approaches to generate these explanations, but both have drawbacks. While feature importance methods, such as shapley additive explanations (SHAP), can be computationally expensive and sensitive to feature correlation, counterfactual explanations only explain a single outcome instead of the entire model. METHODS To overcome these limitations, we propose a new procedure for computing global feature importance that involves aggregating local counterfactual explanations. This approach is specifically tailored to fMRI signals and is based on the hypothesis that instances close to the decision boundary and their counterfactuals mainly differ in the features identified as most important for the downstream classification task. We refer to this proposed feature importance measure as Boundary Crossing Solo Ratio (BoCSoR), since it quantifies the frequency with which a change in each feature in isolation leads to a change in classification outcome, i.e., the crossing of the model's decision boundary. RESULTS AND CONCLUSIONS Experimental results on synthetic data and real publicly available fMRI data from the Human Connect project show that the proposed BoCSoR measure is more robust to feature correlation and less computationally expensive than state-of-the-art methods. Additionally, it is equally effective in providing an explanation for the behavior of any AI model for brain signals. These properties are crucial for medical decision support systems, where many different features are often extracted from the same physiological measures and a gold standard is absent. Consequently, computing feature importance may become computationally expensive, and there may be a high probability of mutual correlation among features, leading to unreliable results from state-of-the-art XAI methods.
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Affiliation(s)
- Antonio Luca Alfeo
- Department of Information Engineering, University of Pisa, Largo Lucio Lazzarino, 1, Pisa, 56126, Italy; Bioengineering & Robotics Research Center E. Piaggio, University of Pisa, Largo Lucio Lazzarino, 1, Pisa, 56126, Italy.
| | - Antonio G Zippo
- Institute of Neuroscience, Consiglio Nazionale delle Ricerche, Via Raoul Follereau, 3, Vedano al Lambro (MB), 20854, Italy
| | - Vincenzo Catrambone
- Department of Information Engineering, University of Pisa, Largo Lucio Lazzarino, 1, Pisa, 56126, Italy; Bioengineering & Robotics Research Center E. Piaggio, University of Pisa, Largo Lucio Lazzarino, 1, Pisa, 56126, Italy
| | - Mario G C A Cimino
- Department of Information Engineering, University of Pisa, Largo Lucio Lazzarino, 1, Pisa, 56126, Italy; Bioengineering & Robotics Research Center E. Piaggio, University of Pisa, Largo Lucio Lazzarino, 1, Pisa, 56126, Italy
| | - Nicola Toschi
- Department of Biomedicine and Prevention, University of Rome Tor Vergata, Via Montpellier 1, Roma, 00133, Italy
| | - Gaetano Valenza
- Department of Information Engineering, University of Pisa, Largo Lucio Lazzarino, 1, Pisa, 56126, Italy; Bioengineering & Robotics Research Center E. Piaggio, University of Pisa, Largo Lucio Lazzarino, 1, Pisa, 56126, Italy
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Surianarayanan C, Lawrence JJ, Chelliah PR, Prakash E, Hewage C. Convergence of Artificial Intelligence and Neuroscience towards the Diagnosis of Neurological Disorders-A Scoping Review. SENSORS (BASEL, SWITZERLAND) 2023; 23:3062. [PMID: 36991773 PMCID: PMC10053494 DOI: 10.3390/s23063062] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/25/2023] [Revised: 03/09/2023] [Accepted: 03/09/2023] [Indexed: 06/19/2023]
Abstract
Artificial intelligence (AI) is a field of computer science that deals with the simulation of human intelligence using machines so that such machines gain problem-solving and decision-making capabilities similar to that of the human brain. Neuroscience is the scientific study of the struczture and cognitive functions of the brain. Neuroscience and AI are mutually interrelated. These two fields help each other in their advancements. The theory of neuroscience has brought many distinct improvisations into the AI field. The biological neural network has led to the realization of complex deep neural network architectures that are used to develop versatile applications, such as text processing, speech recognition, object detection, etc. Additionally, neuroscience helps to validate the existing AI-based models. Reinforcement learning in humans and animals has inspired computer scientists to develop algorithms for reinforcement learning in artificial systems, which enables those systems to learn complex strategies without explicit instruction. Such learning helps in building complex applications, like robot-based surgery, autonomous vehicles, gaming applications, etc. In turn, with its ability to intelligently analyze complex data and extract hidden patterns, AI fits as a perfect choice for analyzing neuroscience data that are very complex. Large-scale AI-based simulations help neuroscientists test their hypotheses. Through an interface with the brain, an AI-based system can extract the brain signals and commands that are generated according to the signals. These commands are fed into devices, such as a robotic arm, which helps in the movement of paralyzed muscles or other human parts. AI has several use cases in analyzing neuroimaging data and reducing the workload of radiologists. The study of neuroscience helps in the early detection and diagnosis of neurological disorders. In the same way, AI can effectively be applied to the prediction and detection of neurological disorders. Thus, in this paper, a scoping review has been carried out on the mutual relationship between AI and neuroscience, emphasizing the convergence between AI and neuroscience in order to detect and predict various neurological disorders.
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Affiliation(s)
| | | | | | - Edmond Prakash
- Research Center for Creative Arts, University for the Creative Arts (UCA), Farnham GU9 7DS, UK
| | - Chaminda Hewage
- Cardiff School of Technologies, Cardiff Metropolitan University, Cardiff CF5 2YB, UK
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Allen B. Discovering Themes in Deep Brain Stimulation Research Using Explainable Artificial Intelligence. Biomedicines 2023; 11:biomedicines11030771. [PMID: 36979750 PMCID: PMC10045890 DOI: 10.3390/biomedicines11030771] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2023] [Revised: 02/17/2023] [Accepted: 02/28/2023] [Indexed: 03/06/2023] Open
Abstract
Deep brain stimulation is a treatment that controls symptoms by changing brain activity. The complexity of how to best treat brain dysfunction with deep brain stimulation has spawned research into artificial intelligence approaches. Machine learning is a subset of artificial intelligence that uses computers to learn patterns in data and has many healthcare applications, such as an aid in diagnosis, personalized medicine, and clinical decision support. Yet, how machine learning models make decisions is often opaque. The spirit of explainable artificial intelligence is to use machine learning models that produce interpretable solutions. Here, we use topic modeling to synthesize recent literature on explainable artificial intelligence approaches to extracting domain knowledge from machine learning models relevant to deep brain stimulation. The results show that patient classification (i.e., diagnostic models, precision medicine) is the most common problem in deep brain stimulation studies that employ explainable artificial intelligence. Other topics concern attempts to optimize stimulation strategies and the importance of explainable methods. Overall, this review supports the potential for artificial intelligence to revolutionize deep brain stimulation by personalizing stimulation protocols and adapting stimulation in real time.
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Affiliation(s)
- Ben Allen
- Department of Psychology, University of Kansas, Lawrence, KS 66045, USA
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10
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Manouchehri N, Bouguila N. Human Activity Recognition with an HMM-Based Generative Model. SENSORS (BASEL, SWITZERLAND) 2023; 23:1390. [PMID: 36772428 PMCID: PMC9920173 DOI: 10.3390/s23031390] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/24/2022] [Revised: 01/11/2023] [Accepted: 01/20/2023] [Indexed: 06/18/2023]
Abstract
Human activity recognition (HAR) has become an interesting topic in healthcare. This application is important in various domains, such as health monitoring, supporting elders, and disease diagnosis. Considering the increasing improvements in smart devices, large amounts of data are generated in our daily lives. In this work, we propose unsupervised, scaled, Dirichlet-based hidden Markov models to analyze human activities. Our motivation is that human activities have sequential patterns and hidden Markov models (HMMs) are some of the strongest statistical models used for modeling data with continuous flow. In this paper, we assume that emission probabilities in HMM follow a bounded-scaled Dirichlet distribution, which is a proper choice in modeling proportional data. To learn our model, we applied the variational inference approach. We used a publicly available dataset to evaluate the performance of our proposed model.
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Affiliation(s)
- Narges Manouchehri
- Algorithmic Dynamics Lab, Unit of Computational Medicine, Karolinska Institute, 171 77 Stockholm, Sweden
- Concordia Institute for Information Systems Engineering, Concordia University, Montreal, QC H3G1T7, Canada
| | - Nizar Bouguila
- Concordia Institute for Information Systems Engineering, Concordia University, Montreal, QC H3G1T7, Canada
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11
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Ma Y, Gong A, Nan W, Ding P, Wang F, Fu Y. Personalized Brain-Computer Interface and Its Applications. J Pers Med 2022; 13:46. [PMID: 36675707 PMCID: PMC9861730 DOI: 10.3390/jpm13010046] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2022] [Revised: 12/19/2022] [Accepted: 12/20/2022] [Indexed: 12/28/2022] Open
Abstract
Brain-computer interfaces (BCIs) are a new technology that subverts traditional human-computer interaction, where the control signal source comes directly from the user's brain. When a general BCI is used for practical applications, it is difficult for it to meet the needs of different individuals because of the differences among individual users in physiological and mental states, sensations, perceptions, imageries, cognitive thinking activities, and brain structures and functions. For this reason, it is necessary to customize personalized BCIs for specific users. So far, few studies have elaborated on the key scientific and technical issues involved in personalized BCIs. In this study, we will focus on personalized BCIs, give the definition of personalized BCIs, and detail their design, development, evaluation methods and applications. Finally, the challenges and future directions of personalized BCIs are discussed. It is expected that this study will provide some useful ideas for innovative studies and practical applications of personalized BCIs.
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Affiliation(s)
- Yixin Ma
- Faculty of Information Engineering and Automation, Kunming University of Science and Technology, Kunming 650500, China
- Brain Cognition and Brain-Computer Intelligence Integration Group, Kunming University of Science and Technology, Kunming 650500, China
| | - Anmin Gong
- School of Information Engineering, Chinese People’s Armed Police Force Engineering University, Xian 710086, China
| | - Wenya Nan
- Department of Psychology, College of Education, Shanghai Normal University, Shanghai 200234, China
| | - Peng Ding
- Faculty of Information Engineering and Automation, Kunming University of Science and Technology, Kunming 650500, China
- Brain Cognition and Brain-Computer Intelligence Integration Group, Kunming University of Science and Technology, Kunming 650500, China
| | - Fan Wang
- Faculty of Information Engineering and Automation, Kunming University of Science and Technology, Kunming 650500, China
- Brain Cognition and Brain-Computer Intelligence Integration Group, Kunming University of Science and Technology, Kunming 650500, China
| | - Yunfa Fu
- Faculty of Information Engineering and Automation, Kunming University of Science and Technology, Kunming 650500, China
- Brain Cognition and Brain-Computer Intelligence Integration Group, Kunming University of Science and Technology, Kunming 650500, China
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12
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Chen ZS, Kulkarni P(P, Galatzer-Levy IR, Bigio B, Nasca C, Zhang Y. Modern views of machine learning for precision psychiatry. PATTERNS (NEW YORK, N.Y.) 2022; 3:100602. [PMID: 36419447 PMCID: PMC9676543 DOI: 10.1016/j.patter.2022.100602] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
In light of the National Institute of Mental Health (NIMH)'s Research Domain Criteria (RDoC), the advent of functional neuroimaging, novel technologies and methods provide new opportunities to develop precise and personalized prognosis and diagnosis of mental disorders. Machine learning (ML) and artificial intelligence (AI) technologies are playing an increasingly critical role in the new era of precision psychiatry. Combining ML/AI with neuromodulation technologies can potentially provide explainable solutions in clinical practice and effective therapeutic treatment. Advanced wearable and mobile technologies also call for the new role of ML/AI for digital phenotyping in mobile mental health. In this review, we provide a comprehensive review of ML methodologies and applications by combining neuroimaging, neuromodulation, and advanced mobile technologies in psychiatry practice. We further review the role of ML in molecular phenotyping and cross-species biomarker identification in precision psychiatry. We also discuss explainable AI (XAI) and neuromodulation in a closed human-in-the-loop manner and highlight the ML potential in multi-media information extraction and multi-modal data fusion. Finally, we discuss conceptual and practical challenges in precision psychiatry and highlight ML opportunities in future research.
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Affiliation(s)
- Zhe Sage Chen
- Department of Psychiatry, New York University Grossman School of Medicine, New York, NY 10016, USA
- Department of Neuroscience and Physiology, New York University Grossman School of Medicine, New York, NY 10016, USA
- The Neuroscience Institute, New York University Grossman School of Medicine, New York, NY 10016, USA
- Department of Biomedical Engineering, New York University Tandon School of Engineering, Brooklyn, NY 11201, USA
| | | | - Isaac R. Galatzer-Levy
- Department of Psychiatry, New York University Grossman School of Medicine, New York, NY 10016, USA
- Meta Reality Lab, New York, NY, USA
| | - Benedetta Bigio
- Department of Psychiatry, New York University Grossman School of Medicine, New York, NY 10016, USA
| | - Carla Nasca
- Department of Psychiatry, New York University Grossman School of Medicine, New York, NY 10016, USA
- The Neuroscience Institute, New York University Grossman School of Medicine, New York, NY 10016, USA
| | - Yu Zhang
- Department of Bioengineering, Lehigh University, Bethlehem, PA 18015, USA
- Department of Electrical and Computer Engineering, Lehigh University, Bethlehem, PA 18015, USA
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XAI4EEG: spectral and spatio-temporal explanation of deep learning-based seizure detection in EEG time series. Neural Comput Appl 2022. [DOI: 10.1007/s00521-022-07809-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2022]
Abstract
AbstractIn clinical practice, algorithmic predictions may seriously jeopardise patients’ health and thus are required to be validated by medical experts before a final clinical decision is met. Towards that aim, there is need to incorporate explainable artificial intelligence techniques into medical research. In the specific field of epileptic seizure detection there are several machine learning algorithms but less methods on explaining them in an interpretable way. Therefore, we introduce XAI4EEG: an application-aware approach for an explainable and hybrid deep learning-based detection of seizures in multivariate EEG time series. In XAI4EEG, we combine deep learning models and domain knowledge on seizure detection, namely (a) frequency bands, (b) location of EEG leads and (c) temporal characteristics. XAI4EEG encompasses EEG data preparation, two deep learning models and our proposed explanation module visualizing feature contributions that are obtained by two SHAP explainers, each explaining the predictions of one of the two models. The resulting visual explanations provide an intuitive identification of decision-relevant regions in the spectral, spatial and temporal EEG dimensions. To evaluate XAI4EEG, we conducted a user study, where users were asked to assess the outputs of XAI4EEG, while working under time constraints, in order to emulate the fact that clinical diagnosis is done - more often than not - under time pressure. We found that the visualizations of our explanation module (1) lead to a substantially lower time for validating the predictions and (2) leverage an increase in interpretability, trust and confidence compared to selected SHAP feature contribution plots.
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Tufford AR, Diou C, Lucassen DA, Ioakimidis I, O'Malley G, Alagialoglou L, Charmandari E, Doyle G, Filis K, Kassari P, Kechadi T, Kilintzis V, Kok E, Lekka I, Maglaveras N, Pagkalos I, Papapanagiotou V, Sarafis I, Shahid A, van ’t Veer P, Delopoulos A, Mars M. Toward Systems Models for Obesity Prevention: A Big Role for Big Data. Curr Dev Nutr 2022; 6:nzac123. [PMID: 36157849 PMCID: PMC9492244 DOI: 10.1093/cdn/nzac123] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2021] [Revised: 03/24/2022] [Accepted: 07/28/2022] [Indexed: 11/14/2022] Open
Abstract
The relation among the various causal factors of obesity is not well understood, and there remains a lack of viable data to advance integrated, systems models of its etiology. The collection of big data has begun to allow the exploration of causal associations between behavior, built environment, and obesity-relevant health outcomes. Here, the traditional epidemiologic and emerging big data approaches used in obesity research are compared, describing the research questions, needs, and outcomes of 3 broad research domains: eating behavior, social food environments, and the built environment. Taking tangible steps at the intersection of these domains, the recent European Union project "BigO: Big data against childhood obesity" used a mobile health tool to link objective measurements of health, physical activity, and the built environment. BigO provided learning on the limitations of big data, such as privacy concerns, study sampling, and the balancing of epidemiologic domain expertise with the required technical expertise. Adopting big data approaches will facilitate the exploitation of data concerning obesity-relevant behaviors of a greater variety, which are also processed at speed, facilitated by mobile-based data collection and monitoring systems, citizen science, and artificial intelligence. These approaches will allow the field to expand from causal inference to more complex, systems-level predictive models, stimulating ambitious and effective policy interventions.
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Affiliation(s)
- Adele R Tufford
- Division of Human Nutrition and Health, Wageningen University and Research, Wageningen, Netherlands
| | - Christos Diou
- Department of Informatics and Telematics, Harokopio University of Athens, Athens, Greece
| | - Desiree A Lucassen
- Division of Human Nutrition and Health, Wageningen University and Research, Wageningen, Netherlands
| | - Ioannis Ioakimidis
- Department of Biosciences and Nutrition, Karolinska Institute, Stockholm, Sweden
| | - Grace O'Malley
- W82GO Child and Adolescent Weight Management Service, Children's Health Ireland at Temple Street, Dublin, Ireland
- Division of Population Health Sciences, School of Physiotherapy, Royal College of Surgeons in Ireland University for Medicine and Health Sciences, Dublin, Ireland
| | - Leonidas Alagialoglou
- Department of Electrical and Computer Engineering, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Evangelia Charmandari
- Division of Endocrinology, Metabolism, and Diabetes, First Department of Pediatrics, National and Kapodistrian University of Athens Medical School, “Aghia Sophia” Children's Hospital, Athens, Greece
- Division of Endocrinology and Metabolism, Center for Clinical, Experimental Surgery and Translational Research, Biomedical Research Foundation of the Academy of Athens, Athens, Greece
| | - Gerardine Doyle
- College of Business, University College Dublin, Dublin, Ireland
- Geary Institute for Public Policy, University College Dublin, Dublin, Ireland
| | | | - Penio Kassari
- Division of Endocrinology, Metabolism, and Diabetes, First Department of Pediatrics, National and Kapodistrian University of Athens Medical School, “Aghia Sophia” Children's Hospital, Athens, Greece
- Division of Endocrinology and Metabolism, Center for Clinical, Experimental Surgery and Translational Research, Biomedical Research Foundation of the Academy of Athens, Athens, Greece
| | - Tahar Kechadi
- CeADAR: Ireland's Centre for Applied AI, University College Dublin, Dublin 4, Ireland
| | - Vassilis Kilintzis
- Lab of Computing, Medical Informatics, and Biomedical Imaging Technologies, Department of Medicine, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Esther Kok
- Division of Human Nutrition and Health, Wageningen University and Research, Wageningen, Netherlands
| | - Irini Lekka
- Lab of Computing, Medical Informatics, and Biomedical Imaging Technologies, Department of Medicine, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Nicos Maglaveras
- Lab of Computing, Medical Informatics, and Biomedical Imaging Technologies, Department of Medicine, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Ioannis Pagkalos
- Department of Nutritional Sciences and Dietetics, School of Health Sciences, International Hellenic University, Thessaloniki, Greece
| | - Vasileios Papapanagiotou
- Department of Electrical and Computer Engineering, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Ioannis Sarafis
- Department of Electrical and Computer Engineering, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Arsalan Shahid
- CeADAR: Ireland's Centre for Applied AI, University College Dublin, Dublin 4, Ireland
| | - Pieter van ’t Veer
- Division of Human Nutrition and Health, Wageningen University and Research, Wageningen, Netherlands
| | - Anastasios Delopoulos
- Department of Electrical and Computer Engineering, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Monica Mars
- Division of Human Nutrition and Health, Wageningen University and Research, Wageningen, Netherlands
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Lombardi A, Diacono D, Amoroso N, Biecek P, Monaco A, Bellantuono L, Pantaleo E, Logroscino G, De Blasi R, Tangaro S, Bellotti R. A robust framework to investigate the reliability and stability of explainable artificial intelligence markers of Mild Cognitive Impairment and Alzheimer's Disease. Brain Inform 2022; 9:17. [PMID: 35882684 PMCID: PMC9325942 DOI: 10.1186/s40708-022-00165-5] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2022] [Accepted: 07/03/2022] [Indexed: 11/11/2022] Open
Abstract
In clinical practice, several standardized neuropsychological tests have been designed to assess and monitor the neurocognitive status of patients with neurodegenerative diseases such as Alzheimer's disease. Important research efforts have been devoted so far to the development of multivariate machine learning models that combine the different test indexes to predict the diagnosis and prognosis of cognitive decline with remarkable results. However, less attention has been devoted to the explainability of these models. In this work, we present a robust framework to (i) perform a threefold classification between healthy control subjects, individuals with cognitive impairment, and subjects with dementia using different cognitive indexes and (ii) analyze the variability of the explainability SHAP values associated with the decisions taken by the predictive models. We demonstrate that the SHAP values can accurately characterize how each index affects a patient's cognitive status. Furthermore, we show that a longitudinal analysis of SHAP values can provide effective information on Alzheimer's disease progression.
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Affiliation(s)
- Angela Lombardi
- Dipartimento di Fisica, Università degli Studi di Bari Aldo Moro, Bari, Italy
- Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy
| | - Domenico Diacono
- Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy
| | - Nicola Amoroso
- Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy
- Dipartimento di Farmacia - Scienze del Farmaco, Università degli Studi di Bari Aldo Moro, Bari, Italy
| | - Przemysław Biecek
- Faculty of Mathematics and Information Science, Warsaw University of Technology, Warsaw, Poland
- Faculty of Mathematics, Informatics and Mechanics, University of Warsaw, Warsaw, Poland
| | - Alfonso Monaco
- Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy
| | - Loredana Bellantuono
- Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy
- Dipartimento di Scienze mediche di base, Neuroscienze e Organi di senso, Università degli Studi di Bari Aldo Moro, Bari, Italy
| | - Ester Pantaleo
- Dipartimento di Fisica, Università degli Studi di Bari Aldo Moro, Bari, Italy
- Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy
| | - Giancarlo Logroscino
- Dipartimento di Scienze mediche di base, Neuroscienze e Organi di senso, Università degli Studi di Bari Aldo Moro, Bari, Italy
- Pia Fondazione “Card. G. Panico”, Tricase, Italy
| | | | - Sabina Tangaro
- Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy
- Dipartimento di Scienze del Suolo, della Pianta e degli Alimenti, Università degli Studi di Bari Aldo Moro, Bari, Italy
| | - Roberto Bellotti
- Dipartimento di Fisica, Università degli Studi di Bari Aldo Moro, Bari, Italy
- Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy
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Otaki Y, Singh A, Kavanagh P, Miller RJH, Parekh T, Tamarappoo BK, Sharir T, Einstein AJ, Fish MB, Ruddy TD, Kaufmann PA, Sinusas AJ, Miller EJ, Bateman TM, Dorbala S, Di Carli M, Cadet S, Liang JX, Dey D, Berman DS, Slomka PJ. Clinical Deployment of Explainable Artificial Intelligence of SPECT for Diagnosis of Coronary Artery Disease. JACC Cardiovasc Imaging 2022; 15:1091-1102. [PMID: 34274267 PMCID: PMC9020794 DOI: 10.1016/j.jcmg.2021.04.030] [Citation(s) in RCA: 33] [Impact Index Per Article: 16.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/02/2021] [Revised: 04/12/2021] [Accepted: 04/30/2021] [Indexed: 11/23/2022]
Abstract
BACKGROUND Explainable artificial intelligence (AI) can be integrated within standard clinical software to facilitate the acceptance of the diagnostic findings during clinical interpretation. OBJECTIVES This study sought to develop and evaluate a novel, general purpose, explainable deep learning model (coronary artery disease-deep learning [CAD-DL]) for the detection of obstructive CAD following single-photon emission computed tomography (SPECT) myocardial perfusion imaging (MPI). METHODS A total of 3,578 patients with suspected CAD undergoing SPECT MPI and invasive coronary angiography within a 6-month interval from 9 centers were studied. CAD-DL computes the probability of obstructive CAD from stress myocardial perfusion, wall motion, and wall thickening maps, as well as left ventricular volumes, age, and sex. Myocardial regions contributing to the CAD-DL prediction are highlighted to explain the findings to the physician. A clinical prototype was integrated using a standard clinical workstation. Diagnostic performance by CAD-DL was compared to automated quantitative total perfusion deficit (TPD) and reader diagnosis. RESULTS In total, 2,247 patients (63%) had obstructive CAD. In 10-fold repeated testing, the area under the receiver-operating characteristic curve (AUC) (95% CI) was higher according to CAD-DL (AUC: 0.83 [95% CI: 0.82-0.85]) than stress TPD (AUC: 0.78 [95% CI: 0.77-0.80]) or reader diagnosis (AUC: 0.71 [95% CI: 0.69-0.72]; P < 0.0001 for both). In external testing, the AUC in 555 patients was higher according to CAD-DL (AUC: 0.80 [95% CI: 0.76-0.84]) than stress TPD (AUC: 0.73 [95% CI: 0.69-0.77]) or reader diagnosis (AUC: 0.65 [95% CI: 0.61-0.69]; P < 0.001 for all). The present model can be integrated within standard clinical software and generates results rapidly (<12 seconds on a standard clinical workstation) and therefore could readily be incorporated into a typical clinical workflow. CONCLUSIONS The deep-learning model significantly surpasses the diagnostic accuracy of standard quantitative analysis and clinical visual reading for MPI. Explainable artificial intelligence can be integrated within standard clinical software to facilitate acceptance of artificial intelligence diagnosis of CAD following MPI.
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Affiliation(s)
- Yuka Otaki
- Department of Imaging (Division of Nuclear Medicine), Medicine (Division of Artificial Intelligence in Medicine), and Biomedical Sciences, Cedars-Sinai Medical Center, Los Angeles, California, USA
| | - Ananya Singh
- Department of Imaging (Division of Nuclear Medicine), Medicine (Division of Artificial Intelligence in Medicine), and Biomedical Sciences, Cedars-Sinai Medical Center, Los Angeles, California, USA
| | - Paul Kavanagh
- Department of Imaging (Division of Nuclear Medicine), Medicine (Division of Artificial Intelligence in Medicine), and Biomedical Sciences, Cedars-Sinai Medical Center, Los Angeles, California, USA
| | - Robert J H Miller
- Department of Imaging (Division of Nuclear Medicine), Medicine (Division of Artificial Intelligence in Medicine), and Biomedical Sciences, Cedars-Sinai Medical Center, Los Angeles, California, USA; Department of Cardiac Sciences, University of Calgary, Calgary, Alberta, Canada
| | - Tejas Parekh
- Department of Imaging (Division of Nuclear Medicine), Medicine (Division of Artificial Intelligence in Medicine), and Biomedical Sciences, Cedars-Sinai Medical Center, Los Angeles, California, USA
| | - Balaji K Tamarappoo
- Department of Imaging (Division of Nuclear Medicine), Medicine (Division of Artificial Intelligence in Medicine), and Biomedical Sciences, Cedars-Sinai Medical Center, Los Angeles, California, USA
| | - Tali Sharir
- Department of Nuclear Cardiology, Assuta Medical Centers, Tel Aviv, Israel, and Ben Gurion University of the Negev, Beer Sheba, Israel
| | - Andrew J Einstein
- Division of Cardiology, Departments of Medicine and Radiology, Columbia University Irving Medical Center and New York-Presbyterian Hospital, New York, New York, USA
| | - Mathews B Fish
- Oregon Heart and Vascular Institute, Sacred Heart Medical Center, Springfield, Oregon, USA
| | - Terrence D Ruddy
- Division of Cardiology, University of Ottawa Heart Institute, Ottawa, Ontario, Canada
| | - Philipp A Kaufmann
- Department of Nuclear Medicine, Cardiac Imaging, University Hospital Zurich, Zurich, Switzerland
| | - Albert J Sinusas
- Section of Cardiovascular Medicine, Department of Internal Medicine, Yale University School of Medicine, New Haven, Connecticut, USA
| | - Edward J Miller
- Section of Cardiovascular Medicine, Department of Internal Medicine, Yale University School of Medicine, New Haven, Connecticut, USA
| | - Timothy M Bateman
- Cardiovascular Imaging Technologies, LLC, Kansas City, Missouri, USA
| | - Sharmila Dorbala
- Department of Radiology, Division of Nuclear Medicine and Molecular Imaging, Brigham and Women's Hospital, Boston, Massachusetts, USA
| | - Marcelo Di Carli
- Department of Radiology, Division of Nuclear Medicine and Molecular Imaging, Brigham and Women's Hospital, Boston, Massachusetts, USA
| | - Sebastien Cadet
- Department of Imaging (Division of Nuclear Medicine), Medicine (Division of Artificial Intelligence in Medicine), and Biomedical Sciences, Cedars-Sinai Medical Center, Los Angeles, California, USA
| | - Joanna X Liang
- Department of Imaging (Division of Nuclear Medicine), Medicine (Division of Artificial Intelligence in Medicine), and Biomedical Sciences, Cedars-Sinai Medical Center, Los Angeles, California, USA
| | - Damini Dey
- Department of Imaging (Division of Nuclear Medicine), Medicine (Division of Artificial Intelligence in Medicine), and Biomedical Sciences, Cedars-Sinai Medical Center, Los Angeles, California, USA
| | - Daniel S Berman
- Department of Imaging (Division of Nuclear Medicine), Medicine (Division of Artificial Intelligence in Medicine), and Biomedical Sciences, Cedars-Sinai Medical Center, Los Angeles, California, USA
| | - Piotr J Slomka
- Department of Imaging (Division of Nuclear Medicine), Medicine (Division of Artificial Intelligence in Medicine), and Biomedical Sciences, Cedars-Sinai Medical Center, Los Angeles, California, USA.
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Explainable Artificial Intelligence in Data Science. Minds Mach (Dordr) 2022. [DOI: 10.1007/s11023-022-09603-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Abstract
AbstractA widespread need to explain the behavior and outcomes of AI-based systems has emerged, due to their ubiquitous presence. Thus, providing renewed momentum to the relatively new research area of eXplainable AI (XAI). Nowadays, the importance of XAI lies in the fact that the increasing control transference to this kind of system for decision making -or, at least, its use for assisting executive stakeholders- already affects many sensitive realms (as in Politics, Social Sciences, or Law). The decision-making power handover to opaque AI systems makes mandatory explaining those, primarily in application scenarios where the stakeholders are unaware of both the high technology applied and the basic principles governing the technological solutions. The issue should not be reduced to a merely technical problem; the explainer would be compelled to transmit richer knowledge about the system (including its role within the informational ecosystem where he/she works). To achieve such an aim, the explainer could exploit, if necessary, practices from other scientific and humanistic areas. The first aim of the paper is to emphasize and justify the need for a multidisciplinary approach that is beneficiated from part of the scientific and philosophical corpus on Explaining, underscoring the particular nuances of the issue within the field of Data Science. The second objective is to develop some arguments justifying the authors’ bet by a more relevant role of ideas inspired by, on the one hand, formal techniques from Knowledge Representation and Reasoning, and on the other hand, the modeling of human reasoning when facing the explanation. This way, explaining modeling practices would seek a sound balance between the pure technical justification and the explainer-explainee agreement.
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Utkin LV, Meldo AA, Kovalev MS, Kasimov EM. A Review of Methods for Explaining and Interpreting Decisions of Intelligent Cancer Diagnosis Systems. SCIENTIFIC AND TECHNICAL INFORMATION PROCESSING 2022. [DOI: 10.3103/s0147688221050129] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Baptista ML, Goebel K, Henriques EM. Relation between Prognostics Predictor Evaluation Metrics and Local Interpretability SHAP Values. ARTIF INTELL 2022. [DOI: 10.1016/j.artint.2022.103667] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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21
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A Systematic Review of Explainable Artificial Intelligence in Terms of Different Application Domains and Tasks. APPLIED SCIENCES-BASEL 2022. [DOI: 10.3390/app12031353] [Citation(s) in RCA: 17] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
Artificial intelligence (AI) and machine learning (ML) have recently been radically improved and are now being employed in almost every application domain to develop automated or semi-automated systems. To facilitate greater human acceptability of these systems, explainable artificial intelligence (XAI) has experienced significant growth over the last couple of years with the development of highly accurate models but with a paucity of explainability and interpretability. The literature shows evidence from numerous studies on the philosophy and methodologies of XAI. Nonetheless, there is an evident scarcity of secondary studies in connection with the application domains and tasks, let alone review studies following prescribed guidelines, that can enable researchers’ understanding of the current trends in XAI, which could lead to future research for domain- and application-specific method development. Therefore, this paper presents a systematic literature review (SLR) on the recent developments of XAI methods and evaluation metrics concerning different application domains and tasks. This study considers 137 articles published in recent years and identified through the prominent bibliographic databases. This systematic synthesis of research articles resulted in several analytical findings: XAI methods are mostly developed for safety-critical domains worldwide, deep learning and ensemble models are being exploited more than other types of AI/ML models, visual explanations are more acceptable to end-users and robust evaluation metrics are being developed to assess the quality of explanations. Research studies have been performed on the addition of explanations to widely used AI/ML models for expert users. However, more attention is required to generate explanations for general users from sensitive domains such as finance and the judicial system.
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22
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Fabietti MI, Mahmud M, Lotfi A, Leparulo A, Fontana R, Vassanelli S, Fassolato C. Detection of Healthy and Unhealthy Brain States from Local Field Potentials Using Machine Learning. Brain Inform 2022. [DOI: 10.1007/978-3-031-15037-1_3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/15/2022] Open
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Smucny J, Shi G, Davidson I. Deep Learning in Neuroimaging: Overcoming Challenges With Emerging Approaches. Front Psychiatry 2022; 13:912600. [PMID: 35722548 PMCID: PMC9200984 DOI: 10.3389/fpsyt.2022.912600] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 04/04/2022] [Accepted: 05/06/2022] [Indexed: 12/12/2022] Open
Abstract
Deep learning (DL) is of great interest in psychiatry due its potential yet largely untapped ability to utilize multidimensional datasets (such as fMRI data) to predict clinical outcomes. Typical DL methods, however, have strong assumptions, such as large datasets and underlying model opaqueness, that are suitable for natural image prediction problems but not medical imaging. Here we describe three relatively novel DL approaches that may help accelerate its incorporation into mainstream psychiatry research and ultimately bring it into the clinic as a prognostic tool. We first introduce two methods that can reduce the amount of training data required to develop accurate models. These may prove invaluable for fMRI-based DL given the time and monetary expense required to acquire neuroimaging data. These methods are (1) transfer learning - the ability of deep learners to incorporate knowledge learned from one data source (e.g., fMRI data from one site) and apply it toward learning from a second data source (e.g., data from another site), and (2) data augmentation (via Mixup) - a self-supervised learning technique in which "virtual" instances are created. We then discuss explainable artificial intelligence (XAI), i.e., tools that reveal what features (and in what combinations) deep learners use to make decisions. XAI can be used to solve the "black box" criticism common in DL and reveal mechanisms that ultimately produce clinical outcomes. We expect these techniques to greatly enhance the applicability of DL in psychiatric research and help reveal novel mechanisms and potential pathways for therapeutic intervention in mental illness.
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Affiliation(s)
- Jason Smucny
- Department of Psychiatry and Behavioral Sciences, University of California, Davis, Davis, CA, United States
| | - Ge Shi
- Department of Computer Sciences, University of California, Davis, Davis, CA, United States
| | - Ian Davidson
- Department of Computer Sciences, University of California, Davis, Davis, CA, United States
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Bhargava A, Bansal A, Goyal V. Machine learning-based automatic detection of novel coronavirus (COVID-19) disease. MULTIMEDIA TOOLS AND APPLICATIONS 2022; 81:13731-13750. [PMID: 35221781 PMCID: PMC8864211 DOI: 10.1007/s11042-022-12508-9] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/20/2021] [Revised: 09/06/2021] [Accepted: 01/25/2022] [Indexed: 05/03/2023]
Abstract
The pandemic was announced by the world health organization coronavirus (COVID-19) universal health dilemma. Any scientific appliance which contributes expeditious detection of coronavirus with a huge recognition rate may be excessively fruitful to doctors. In this environment, innovative automation like deep learning, machine learning, image processing and medical image like chest radiography (CXR), computed tomography (CT) has been refined promising solution contrary to COVID-19. Currently, a reverse transcription-polymerase chain reaction (RT-PCR) test has been used to detect the coronavirus. Due to the moratorium period is high on results tested and huge false negative estimates, substitute solutions are desired. Thus, an automated machine learning-based algorithm is proposed for the detection of COVID-19 and the grading of nine different datasets. This research impacts the grant of image processing and machine learning to expeditious and definite coronavirus detection using CXR and CT medical imaging. This results in early detection, diagnosis, and cure for the accomplishment of COVID-19 as early as possible. Firstly, images are preprocessed by normalization to enhance the quality of the image and removing of noise. Secondly, segmentation of images is done by fuzzy c-means clustering. Then various features namely, statistical, textural, histogram of gradients, and discrete wavelet transform are extracted (92) and selected from the feature vector by principle component analysis. Lastly, k-NN, SRC, ANN, and SVM are used to make decisions for normal, pneumonia, COVID-19 positive patients. The performance of the system has been validated by the k (5) fold cross-validation technique. The proposed algorithm achieves 91.70% (k-Nearest Neighbor), 94.40% (Sparse Representation Classifier), 96.16% (Artificial Neural Network), and 99.14% (Support Vector Machine) for COVID detection. The proposed results show feature combination and selection improves the performance in 14.34 s with machine learning and image processing techniques. Among k-NN, SRC, ANN, and SVM classifiers, SVM shows more efficient results that are promising and comparable with the literature. The proposed approach results in an improved recognition rate as compared to the literature review. Therefore, the algorithm proposed shows immense potential to benefit the radiologist for their findings. Also, fruitful in prior virus diagnosis and discriminate pneumonia between COVID-19 and other pandemics.
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Solanes A, Radua J. Advances in Using MRI to Estimate the Risk of Future Outcomes in Mental Health - Are We Getting There? Front Psychiatry 2022; 13:fpsyt-13-826111. [PMID: 35492715 PMCID: PMC9039205 DOI: 10.3389/fpsyt.2022.826111] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 11/30/2021] [Accepted: 03/16/2022] [Indexed: 11/13/2022] Open
Affiliation(s)
- Aleix Solanes
- Imaging of Mood- and Anxiety-Related Disorders (IMARD) Group, Institut d'Investigacions Biomèdiques August Pi i Sunyer (IDIBAPS), Barcelona, Spain.,Department of Psychiatry and Forensic Medicine, School of Medicine, Autonomous University of Barcelona, Barcelona, Spain
| | - Joaquim Radua
- Imaging of Mood- and Anxiety-Related Disorders (IMARD) Group, Institut d'Investigacions Biomèdiques August Pi i Sunyer (IDIBAPS), Barcelona, Spain.,Early Psychosis: Interventions and Clinical-detection Lab, Institute of Psychiatry, Psychology and Neuroscience, King's College London, London, United Kingdom.,Department of Clinical Neuroscience, Stockholm Health Care Services, Stockholm County Council, Karolinska Institutet, Stockholm, Sweden
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26
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Kelly BJ, Chevarria J, O'Sullivan B, Shorten G. The potential for artificial intelligence to predict clinical outcomes in patients who have acquired acute kidney injury during the perioperative period. Perioper Med (Lond) 2021; 10:49. [PMID: 34906249 PMCID: PMC8672488 DOI: 10.1186/s13741-021-00219-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2020] [Accepted: 07/29/2021] [Indexed: 11/10/2022] Open
Abstract
Acute kidney injury (AKI) is a common medical problem in hospitalised patients worldwide that may result in negative physiological, social and economic consequences. Amongst patients admitted to ICU with AKI, over 40% have had either elective or emergency surgery prior to admission. Predicting outcomes after AKI is difficult and the decision on whom to initiate RRT with a goal of renal recovery or predict a long-term survival benefit still poses a challenge for acute care physicians. With the increasing use of electronic healthcare records, artificial intelligence may allow postoperative AKI prognostication and aid clinical management. Patients will benefit if the data can be readily accessed andregulatory, ethical and human factors challenges can be overcome.
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Affiliation(s)
- Barry J Kelly
- Department of Anaesthesiology and Intensive Care Medicine, University College Cork School of Medicine, Cork, Ireland.
| | - Julio Chevarria
- Department of Nephrology, University College Cork School of Medicine, Cork, Ireland
| | - Barry O'Sullivan
- Insight Centre for Data Analytics, School of Computer Science & Information Technology, University College Cork, Cork, Ireland
| | - George Shorten
- Anaesthesiology and Intensive Care Medicine, School of Medicine, University College Cork, Cork, Ireland
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27
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Zhang S, Liu R, Tao X, Zhao X. Deep Cross-Corpus Speech Emotion Recognition: Recent Advances and Perspectives. Front Neurorobot 2021; 15:784514. [PMID: 34912204 PMCID: PMC8666588 DOI: 10.3389/fnbot.2021.784514] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2021] [Accepted: 11/08/2021] [Indexed: 11/13/2022] Open
Abstract
Automatic speech emotion recognition (SER) is a challenging component of human-computer interaction (HCI). Existing literatures mainly focus on evaluating the SER performance by means of training and testing on a single corpus with a single language setting. However, in many practical applications, there are great differences between the training corpus and testing corpus. Due to the diversity of different speech emotional corpus or languages, most previous SER methods do not perform well when applied in real-world cross-corpus or cross-language scenarios. Inspired by the powerful feature learning ability of recently-emerged deep learning techniques, various advanced deep learning models have increasingly been adopted for cross-corpus SER. This paper aims to provide an up-to-date and comprehensive survey of cross-corpus SER, especially for various deep learning techniques associated with supervised, unsupervised and semi-supervised learning in this area. In addition, this paper also highlights different challenges and opportunities on cross-corpus SER tasks, and points out its future trends.
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Affiliation(s)
- Shiqing Zhang
- Institute of Intelligence Information Processing, Taizhou University, Zhejiang, China
| | - Ruixin Liu
- Institute of Intelligence Information Processing, Taizhou University, Zhejiang, China
- School of Sugon Big Data Science, Zhejiang University of Science and Technology, Zhejiang, China
| | - Xin Tao
- Institute of Intelligence Information Processing, Taizhou University, Zhejiang, China
| | - Xiaoming Zhao
- Institute of Intelligence Information Processing, Taizhou University, Zhejiang, China
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28
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Choi H, Lim S, Min K, Ahn KH, Lee KM, Jang DP. Non-human primate epidural ECoG analysis using explainable deep learning technology. J Neural Eng 2021; 18. [PMID: 34695809 DOI: 10.1088/1741-2552/ac3314] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2021] [Accepted: 10/25/2021] [Indexed: 11/12/2022]
Abstract
Objective.With the development in the field of neural networks,explainable AI(XAI), is being studied to ensure that artificial intelligence models can be explained. There are some attempts to apply neural networks to neuroscientific studies to explain neurophysiological information with high machine learning performances. However, most of those studies have simply visualized features extracted from XAI and seem to lack an active neuroscientific interpretation of those features. In this study, we have tried to actively explain the high-dimensional learning features contained in the neurophysiological information extracted from XAI, compared with the previously reported neuroscientific results.Approach. We designed a deep neural network classifier using 3D information (3D DNN) and a 3D class activation map (3D CAM) to visualize high-dimensional classification features. We used those tools to classify monkey electrocorticogram (ECoG) data obtained from the unimanual and bimanual movement experiment.Main results. The 3D DNN showed better classification accuracy than other machine learning techniques, such as 2D DNN. Unexpectedly, the activation weight in the 3D CAM analysis was high in the ipsilateral motor and somatosensory cortex regions, whereas the gamma-band power was activated in the contralateral areas during unimanual movement, which suggests that the brain signal acquired from the motor cortex contains information about both contralateral movement and ipsilateral movement. Moreover, the hand-movement classification system used critical temporal information at movement onset and offset when classifying bimanual movements.Significance.As far as we know, this is the first study to use high-dimensional neurophysiological information (spatial, spectral, and temporal) with the deep learning method, reconstruct those features, and explain how the neural network works. We expect that our methods can be widely applied and used in neuroscience and electrophysiology research from the point of view of the explainability of XAI as well as its performance.
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Affiliation(s)
- Hoseok Choi
- Department of Neurology, University of California, San Francisco, CA, United States of America.,Department of Biomedical Engineering, Hanyang University, Seoul, Republic of Korea
| | - Seokbeen Lim
- Department of Biomedical Engineering, Hanyang University, Seoul, Republic of Korea
| | - Kyeongran Min
- Department of Biomedical Engineering, Hanyang University, Seoul, Republic of Korea.,Samsung SDS Artificial Intelligence Research Center, Seoul, Republic of Korea
| | - Kyoung-Ha Ahn
- Department of Neurology, Seoul National University Hospital, Seoul, Republic of Korea
| | - Kyoung-Min Lee
- Department of Neurology, Seoul National University Hospital, Seoul, Republic of Korea
| | - Dong Pyo Jang
- Department of Biomedical Engineering, Hanyang University, Seoul, Republic of Korea
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29
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Lombardi A, Tavares JMRS, Tangaro S. Editorial: Explainable Artificial Intelligence (XAI) in Systems Neuroscience. Front Syst Neurosci 2021; 15:766980. [PMID: 34776885 PMCID: PMC8586197 DOI: 10.3389/fnsys.2021.766980] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2021] [Accepted: 10/05/2021] [Indexed: 11/22/2022] Open
Affiliation(s)
- Angela Lombardi
- Dipartimento di Fisica, Università degli Studi di Bari Aldo Moro, Bari, Italy.,Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy
| | - João Manuel R S Tavares
- Departamento de Engenharia Mecânica, Faculdade de Engenharia, Instituto de Ciência e Inovação em Engenharia Mecânica e Engenharia Industrial, Universidade do Porto, Porto, Portugal
| | - Sabina Tangaro
- Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy.,Dipartimento di Scienze del Suolo, della Pianta e degli Alimenti, Università degli Studi di Bari Aldo Moro, Bari, Italy
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30
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Esmaeili M, Vettukattil R, Banitalebi H, Krogh NR, Geitung JT. Explainable Artificial Intelligence for Human-Machine Interaction in Brain Tumor Localization. J Pers Med 2021; 11:jpm11111213. [PMID: 34834566 PMCID: PMC8618183 DOI: 10.3390/jpm11111213] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2021] [Revised: 11/04/2021] [Accepted: 11/12/2021] [Indexed: 01/18/2023] Open
Abstract
Primary malignancies in adult brains are globally fatal. Computer vision, especially recent developments in artificial intelligence (AI), have created opportunities to automatically characterize and diagnose tumor lesions in the brain. AI approaches have provided scores of unprecedented accuracy in different image analysis tasks, including differentiating tumor-containing brains from healthy brains. AI models, however, perform as a black box, concealing the rational interpretations that are an essential step towards translating AI imaging tools into clinical routine. An explainable AI approach aims to visualize the high-level features of trained models or integrate into the training process. This study aims to evaluate the performance of selected deep-learning algorithms on localizing tumor lesions and distinguishing the lesion from healthy regions in magnetic resonance imaging contrasts. Despite a significant correlation between classification and lesion localization accuracy (R = 0.46, p = 0.005), the known AI algorithms, examined in this study, classify some tumor brains based on other non-relevant features. The results suggest that explainable AI approaches can develop an intuition for model interpretability and may play an important role in the performance evaluation of deep learning models. Developing explainable AI approaches will be an essential tool to improve human–machine interactions and assist in the selection of optimal training methods.
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Affiliation(s)
- Morteza Esmaeili
- Department of Diagnostic Imaging, Akershus University Hospital, 1478 Lørenskog, Norway; (H.B.); (N.R.K.); (J.T.G.)
- Department of Electrical Engineering and Computer Science, Faculty of Science and Technology, University of Stavanger, 4021 Stavanger, Norway
- Correspondence:
| | - Riyas Vettukattil
- Faculty of Medicine, Institute of Clinical Medicine, University of Oslo, 0315 Oslo, Norway;
- Division of Paediatric and Adolescent Medicine, Oslo University Hospital, 0372 Oslo, Norway
| | - Hasan Banitalebi
- Department of Diagnostic Imaging, Akershus University Hospital, 1478 Lørenskog, Norway; (H.B.); (N.R.K.); (J.T.G.)
- Faculty of Medicine, Institute of Clinical Medicine, University of Oslo, 0315 Oslo, Norway;
| | - Nina R. Krogh
- Department of Diagnostic Imaging, Akershus University Hospital, 1478 Lørenskog, Norway; (H.B.); (N.R.K.); (J.T.G.)
| | - Jonn Terje Geitung
- Department of Diagnostic Imaging, Akershus University Hospital, 1478 Lørenskog, Norway; (H.B.); (N.R.K.); (J.T.G.)
- Faculty of Medicine, Institute of Clinical Medicine, University of Oslo, 0315 Oslo, Norway;
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31
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Chaddad A, Li J, Lu Q, Li Y, Okuwobi IP, Tanougast C, Desrosiers C, Niazi T. Can Autism Be Diagnosed with Artificial Intelligence? A Narrative Review. Diagnostics (Basel) 2021; 11:2032. [PMID: 34829379 PMCID: PMC8618159 DOI: 10.3390/diagnostics11112032] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2021] [Revised: 10/31/2021] [Accepted: 10/31/2021] [Indexed: 11/16/2022] Open
Abstract
Radiomics with deep learning models have become popular in computer-aided diagnosis and have outperformed human experts on many clinical tasks. Specifically, radiomic models based on artificial intelligence (AI) are using medical data (i.e., images, molecular data, clinical variables, etc.) for predicting clinical tasks such as autism spectrum disorder (ASD). In this review, we summarized and discussed the radiomic techniques used for ASD analysis. Currently, the limited radiomic work of ASD is related to the variation of morphological features of brain thickness that is different from texture analysis. These techniques are based on imaging shape features that can be used with predictive models for predicting ASD. This review explores the progress of ASD-based radiomics with a brief description of ASD and the current non-invasive technique used to classify between ASD and healthy control (HC) subjects. With AI, new radiomic models using the deep learning techniques will be also described. To consider the texture analysis with deep CNNs, more investigations are suggested to be integrated with additional validation steps on various MRI sites.
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Affiliation(s)
- Ahmad Chaddad
- School of Artificial Intelligence, Guilin Universiy of Electronic Technology, Guilin 541004, China; (J.L.); (Q.L.); (Y.L.); (I.P.O.)
- The Laboratory for Imagery, Vision and Artificial Intelligence, École de Technologie Supérieure (ETS), Montreal, QC H3C 1K3, Canada;
| | - Jiali Li
- School of Artificial Intelligence, Guilin Universiy of Electronic Technology, Guilin 541004, China; (J.L.); (Q.L.); (Y.L.); (I.P.O.)
| | - Qizong Lu
- School of Artificial Intelligence, Guilin Universiy of Electronic Technology, Guilin 541004, China; (J.L.); (Q.L.); (Y.L.); (I.P.O.)
| | - Yujie Li
- School of Artificial Intelligence, Guilin Universiy of Electronic Technology, Guilin 541004, China; (J.L.); (Q.L.); (Y.L.); (I.P.O.)
| | - Idowu Paul Okuwobi
- School of Artificial Intelligence, Guilin Universiy of Electronic Technology, Guilin 541004, China; (J.L.); (Q.L.); (Y.L.); (I.P.O.)
| | - Camel Tanougast
- Laboratoire de Conception, Optimisation et Modélisation des Systèmes, University of Lorraine, 57070 Metz, France;
| | - Christian Desrosiers
- The Laboratory for Imagery, Vision and Artificial Intelligence, École de Technologie Supérieure (ETS), Montreal, QC H3C 1K3, Canada;
| | - Tamim Niazi
- Lady Davis Institute for Medical Research, McGill University, Montreal, QC H3T 1E2, Canada;
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32
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Habelt B, Wirth C, Afanasenkau D, Mihaylova L, Winter C, Arvaneh M, Minev IR, Bernhardt N. A Multimodal Neuroprosthetic Interface to Record, Modulate and Classify Electrophysiological Biomarkers Relevant to Neuropsychiatric Disorders. Front Bioeng Biotechnol 2021; 9:770274. [PMID: 34805123 PMCID: PMC8595111 DOI: 10.3389/fbioe.2021.770274] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2021] [Accepted: 10/18/2021] [Indexed: 12/18/2022] Open
Abstract
Most mental disorders, such as addictive diseases or schizophrenia, are characterized by impaired cognitive function and behavior control originating from disturbances within prefrontal neural networks. Their often chronic reoccurring nature and the lack of efficient therapies necessitate the development of new treatment strategies. Brain-computer interfaces, equipped with multiple sensing and stimulation abilities, offer a new toolbox whose suitability for diagnosis and therapy of mental disorders has not yet been explored. This study, therefore, aimed to develop a biocompatible and multimodal neuroprosthesis to measure and modulate prefrontal neurophysiological features of neuropsychiatric symptoms. We used a 3D-printing technology to rapidly prototype customized bioelectronic implants through robot-controlled deposition of soft silicones and a conductive platinum ink. We implanted the device epidurally above the medial prefrontal cortex of rats and obtained auditory event-related brain potentials in treatment-naïve animals, after alcohol administration and following neuromodulation through implant-driven electrical brain stimulation and cortical delivery of the anti-relapse medication naltrexone. Towards smart neuroprosthetic interfaces, we furthermore developed machine learning algorithms to autonomously classify treatment effects within the neural recordings. The neuroprosthesis successfully captured neural activity patterns reflecting intact stimulus processing and alcohol-induced neural depression. Moreover, implant-driven electrical and pharmacological stimulation enabled successful enhancement of neural activity. A machine learning approach based on stepwise linear discriminant analysis was able to deal with sparsity in the data and distinguished treatments with high accuracy. Our work demonstrates the feasibility of multimodal bioelectronic systems to monitor, modulate and identify healthy and affected brain states with potential use in a personalized and optimized therapy of neuropsychiatric disorders.
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Affiliation(s)
- Bettina Habelt
- Department of Psychiatry and Psychotherapy, Medical Faculty Carl Gustav Carus, Technische Universität Dresden, Dresden, Germany
- Leibniz Institute of Polymer Research Dresden, Dresden, Germany
| | - Christopher Wirth
- Department of Automatic Control and Systems Engineering, University of Sheffield, Sheffield, United Kingdom
| | - Dzmitry Afanasenkau
- Biotechnology Center (BIOTEC), Center for Molecular and Cellular Bioengineering (CMCB), Technische Universität Dresden, Dresden, Germany
| | - Lyudmila Mihaylova
- Department of Automatic Control and Systems Engineering, University of Sheffield, Sheffield, United Kingdom
| | - Christine Winter
- Department of Psychiatry and Psychotherapy, Charite University Medicine Berlin, Campus Mitte, Berlin, Germany
| | - Mahnaz Arvaneh
- Department of Automatic Control and Systems Engineering, University of Sheffield, Sheffield, United Kingdom
| | - Ivan R. Minev
- Leibniz Institute of Polymer Research Dresden, Dresden, Germany
- Department of Automatic Control and Systems Engineering, University of Sheffield, Sheffield, United Kingdom
| | - Nadine Bernhardt
- Department of Psychiatry and Psychotherapy, Medical Faculty Carl Gustav Carus, Technische Universität Dresden, Dresden, Germany
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33
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Shahpari M, Hajji M, Mirnajafi-Zadeh J, Setoodeh P. Modeling plasticity during epileptogenesis by long short term memory neural networks. Cogn Neurodyn 2021; 16:401-409. [PMID: 35401870 PMCID: PMC8934824 DOI: 10.1007/s11571-021-09698-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2020] [Revised: 05/30/2021] [Accepted: 07/07/2021] [Indexed: 10/20/2022] Open
Abstract
Understanding the pathogenesis of epilepsy including changes in synaptic pathways can improve our knowledge about epilepsy and development of new treatments. In this regard, data-driven models such as artificial neural networks, which are able to capture the effects of synaptic plasticity, can play an important role. This paper proposes long short term memory (LSTM) as the ideal architecture for modeling plasticity changes, and validates this proposal via experimental data. As a special class of recurrent neural networks (RNNs), LSTM is able to track information through time and control its flow via several gating mechanisms, which allow for maintaining the relevant and forgetting the irrelevant information. In our experiments, potentiation and depotentiation of motor circuit and perforant pathway as two forms of plasticity were respectively induced by kindled and kindled + transcranial magnetic stimulation of animal groups. In kindling, both procedure duration and gradual synaptic changes play critical roles. The stimulation of both groups continued for six days. Both after-discharge (AD) and seizure behavior as two biologically measurable effects of plasticity were recorded immediately post each stimulation. Three classes of artificial neural networks-LSTM, RNN, and feedforward neural network (FFNN)-were trained to predict AD and seizure behavior as indicators of plasticity during these six days. Results obtained from the collected data confirm the superiority of LSTM. For seizure behavior, the prediction accuracies achieved by these three models were 0.91 ± 0.01, 0.77 ± 0.02, and 0.59 ± 0.02%, respectively, and for AD, the prediction accuracies were 0.82 ± 0.01, 0.74 ± 0.08 and 0.42 ± 0.1, respectively.
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34
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Taming the chaos?! Using eXplainable Artificial Intelligence (XAI) to tackle the complexity in mental health research. Eur Child Adolesc Psychiatry 2021; 30:1143-1146. [PMID: 34240264 PMCID: PMC8310842 DOI: 10.1007/s00787-021-01836-0] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
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35
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Xu X, Wang H, Guo Y, Zhang X, Li B, Du P, Liu Y, Lu H. Study Progress of Noninvasive Imaging and Radiomics for Decoding the Phenotypes and Recurrence Risk of Bladder Cancer. Front Oncol 2021; 11:704039. [PMID: 34336691 PMCID: PMC8321511 DOI: 10.3389/fonc.2021.704039] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2021] [Accepted: 06/30/2021] [Indexed: 12/24/2022] Open
Abstract
Urinary bladder cancer (BCa) is a highly prevalent disease among aged males. Precise diagnosis of tumor phenotypes and recurrence risk is of vital importance in the clinical management of BCa. Although imaging modalities such as CT and multiparametric MRI have played an essential role in the noninvasive diagnosis and prognosis of BCa, radiomics has also shown great potential in the precise diagnosis of BCa and preoperative prediction of the recurrence risk. Radiomics-empowered image interpretation can amplify the differences in tumor heterogeneity between different phenotypes, i.e., high-grade vs. low-grade, early-stage vs. advanced-stage, and nonmuscle-invasive vs. muscle-invasive. With a multimodal radiomics strategy, the recurrence risk of BCa can be preoperatively predicted, providing critical information for the clinical decision making. We thus reviewed the rapid progress in the field of medical imaging empowered by the radiomics for decoding the phenotype and recurrence risk of BCa during the past 20 years, summarizing the entire pipeline of the radiomics strategy for the definition of BCa phenotype and recurrence risk including region of interest definition, radiomics feature extraction, tumor phenotype prediction and recurrence risk stratification. We particularly focus on current pitfalls, challenges and opportunities to promote massive clinical applications of radiomics pipeline in the near future.
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Affiliation(s)
- Xiaopan Xu
- School of Biomedical Engineering, Air Force Medical University, Xi’an, China
| | - Huanjun Wang
- Department of Radiology, The First Affiliated Hospital, Sun Yat-Sen University, Guangzhou, China
| | - Yan Guo
- Department of Radiology, The First Affiliated Hospital, Sun Yat-Sen University, Guangzhou, China
| | - Xi Zhang
- School of Biomedical Engineering, Air Force Medical University, Xi’an, China
| | - Baojuan Li
- School of Biomedical Engineering, Air Force Medical University, Xi’an, China
| | - Peng Du
- School of Biomedical Engineering, Air Force Medical University, Xi’an, China
| | - Yang Liu
- School of Biomedical Engineering, Air Force Medical University, Xi’an, China
| | - Hongbing Lu
- School of Biomedical Engineering, Air Force Medical University, Xi’an, China
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36
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Lombardi A, Diacono D, Amoroso N, Monaco A, Tavares JMRS, Bellotti R, Tangaro S. Explainable Deep Learning for Personalized Age Prediction With Brain Morphology. Front Neurosci 2021; 15:674055. [PMID: 34122000 PMCID: PMC8192966 DOI: 10.3389/fnins.2021.674055] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2021] [Accepted: 04/26/2021] [Indexed: 12/29/2022] Open
Abstract
Predicting brain age has become one of the most attractive challenges in computational neuroscience due to the role of the predicted age as an effective biomarker for different brain diseases and conditions. A great variety of machine learning (ML) approaches and deep learning (DL) techniques have been proposed to predict age from brain magnetic resonance imaging scans. If on one hand, DL models could improve performance and reduce model bias compared to other less complex ML methods, on the other hand, they are typically black boxes as do not provide an in-depth understanding of the underlying mechanisms. Explainable Artificial Intelligence (XAI) methods have been recently introduced to provide interpretable decisions of ML and DL algorithms both at local and global level. In this work, we present an explainable DL framework to predict the age of a healthy cohort of subjects from ABIDE I database by using the morphological features extracted from their MRI scans. We embed the two local XAI methods SHAP and LIME to explain the outcomes of the DL models, determine the contribution of each brain morphological descriptor to the final predicted age of each subject and investigate the reliability of the two methods. Our findings indicate that the SHAP method can provide more reliable explanations for the morphological aging mechanisms and be exploited to identify personalized age-related imaging biomarker.
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Affiliation(s)
- Angela Lombardi
- Dipartimento di Fisica, Universitá degli Studi di Bari Aldo Moro, Bari, Italy.,Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy
| | - Domenico Diacono
- Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy
| | - Nicola Amoroso
- Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy.,Dipartimento di Farmacia - Scienze del Farmaco, Università degli Studi di Bari Aldo Moro, Bari, Italy
| | - Alfonso Monaco
- Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy
| | - João Manuel R S Tavares
- Instituto de Ciência e Inovação em Engenharia Mecânica e Engenharia Industrial, Departamento de Engenharia Mecânica, Faculdade de Engenharia, Universidade Do Porto, Porto, Portugal
| | - Roberto Bellotti
- Dipartimento di Fisica, Universitá degli Studi di Bari Aldo Moro, Bari, Italy.,Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy
| | - Sabina Tangaro
- Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy.,Dipartimento di Scienze del Suolo, della Pianta e degli Alimenti, Università degli Studi di Bari Aldo Moro, Bari, Italy
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37
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Prosociality in Cyberspace: Developing Emotion and Behavioral Regulation to Decrease Aggressive Communication. Cognit Comput 2021. [DOI: 10.1007/s12559-021-09852-7] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
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38
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Ieracitano C, Mammone N, Hussain A, Morabito FC. A novel explainable machine learning approach for EEG-based brain-computer interface systems. Neural Comput Appl 2021. [DOI: 10.1007/s00521-020-05624-w] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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39
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Silva TM, Borniger JC, Alves MJ, Alzate Correa D, Zhao J, Fadda P, Toland AE, Takakura AC, Moreira TS, Czeisler CM, Otero JJ. Machine learning approaches reveal subtle differences in breathing and sleep fragmentation in Phox2b-derived astrocytes ablated mice. J Neurophysiol 2021; 125:1164-1179. [PMID: 33502943 DOI: 10.1152/jn.00155.2020] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023] Open
Abstract
Modern neurophysiology research requires the interrogation of high-dimensionality data sets. Machine learning and artificial intelligence (ML/AI) workflows have permeated into nearly all aspects of daily life in the developed world but have not been implemented routinely in neurophysiological analyses. The power of these workflows includes the speed at which they can be deployed, their availability of open-source programming languages, and the objectivity permitted in their data analysis. We used classification-based algorithms, including random forest, gradient boosted machines, support vector machines, and neural networks, to test the hypothesis that the animal genotypes could be separated into their genotype based on interpretation of neurophysiological recordings. We then interrogate the models to identify what were the major features utilized by the algorithms to designate genotype classification. By using raw EEG and respiratory plethysmography data, we were able to predict which recordings came from genotype class with accuracies that were significantly improved relative to the no information rate, although EEG analyses showed more overlap between groups than respiratory plethysmography. In comparison, conventional methods where single features between animal classes were analyzed, differences between the genotypes tested using baseline neurophysiology measurements showed no statistical difference. However, ML/AI workflows successfully were capable of providing successful classification, indicating that interactions between features were different in these genotypes. ML/AI workflows provide new methodologies to interrogate neurophysiology data. However, their implementation must be done with care so as to provide high rigor and reproducibility between laboratories. We provide a series of recommendations on how to report the utilization of ML/AI workflows for the neurophysiology community.NEW & NOTEWORTHY ML/AI classification workflows are capable of providing insight into differences between genotypes for neurophysiology research. Analytical techniques utilized in the neurophysiology community can be augmented by implementing ML/AI workflows. Random forest is a robust classification algorithm for respiratory plethysmography data. Utilization of ML/AI workflows in neurophysiology research requires heightened transparency and improved community research standards.
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Affiliation(s)
- Talita M Silva
- Division of Neuropathology, Department of Pathology, The Ohio State University College of Medicine.,Department of Physiology and Biophysics, Institute of Biomedical Science, University of São Paulo
| | | | - Michele Joana Alves
- Division of Neuropathology, Department of Pathology, The Ohio State University College of Medicine
| | - Diego Alzate Correa
- Division of Neuropathology, Department of Pathology, The Ohio State University College of Medicine
| | - Jing Zhao
- Department of Biomedical Informatics, The Ohio State University College of Dentistry
| | - Paolo Fadda
- Genomics Shared Resource-Comprehensive Cancer Center, The Ohio State University
| | - Amanda Ewart Toland
- Genomics Shared Resource-Comprehensive Cancer Center, The Ohio State University.,Department of Cancer Biology and Genetics, The Ohio State University College of Medicine
| | - Ana C Takakura
- Department of Pharmacology, Institute of Biomedical Science, University of São Paulo
| | - Thiago S Moreira
- Department of Physiology and Biophysics, Institute of Biomedical Science, University of São Paulo
| | - Catherine M Czeisler
- Division of Neuropathology, Department of Pathology, The Ohio State University College of Medicine
| | - José Javier Otero
- Division of Neuropathology, Department of Pathology, The Ohio State University College of Medicine
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Ghannam RB, Techtmann SM. Machine learning applications in microbial ecology, human microbiome studies, and environmental monitoring. Comput Struct Biotechnol J 2021; 19:1092-1107. [PMID: 33680353 PMCID: PMC7892807 DOI: 10.1016/j.csbj.2021.01.028] [Citation(s) in RCA: 74] [Impact Index Per Article: 24.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2020] [Revised: 01/16/2021] [Accepted: 01/18/2021] [Indexed: 01/04/2023] Open
Abstract
Advances in nucleic acid sequencing technology have enabled expansion of our ability to profile microbial diversity. These large datasets of taxonomic and functional diversity are key to better understanding microbial ecology. Machine learning has proven to be a useful approach for analyzing microbial community data and making predictions about outcomes including human and environmental health. Machine learning applied to microbial community profiles has been used to predict disease states in human health, environmental quality and presence of contamination in the environment, and as trace evidence in forensics. Machine learning has appeal as a powerful tool that can provide deep insights into microbial communities and identify patterns in microbial community data. However, often machine learning models can be used as black boxes to predict a specific outcome, with little understanding of how the models arrived at predictions. Complex machine learning algorithms often may value higher accuracy and performance at the sacrifice of interpretability. In order to leverage machine learning into more translational research related to the microbiome and strengthen our ability to extract meaningful biological information, it is important for models to be interpretable. Here we review current trends in machine learning applications in microbial ecology as well as some of the important challenges and opportunities for more broad application of machine learning to understanding microbial communities.
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Key Words
- 16S rRNA
- ANN, Artificial Neural Networks
- ASV, Amplicon Sequence Variant
- AUC, Area Under the Curve
- Forensics
- GB, Gradient Boosting
- ML, Machine Learning
- Machine learning
- Marker genes
- Metagenomics
- PCoA, Principal Coordinate Analysis
- RF, Random Forests
- ROC, Receiver Operating Characteristic
- SML, Supervised Machine Learning
- SVM, Support Vector Machines
- USML, Unsupervised Machine Learning
- tSNE, t-distributed Stochastic Neighbor Embedding
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Affiliation(s)
- Ryan B. Ghannam
- Department of Biological Sciences, Michigan Technological University, Houghton MI, United States
| | - Stephen M. Techtmann
- Department of Biological Sciences, Michigan Technological University, Houghton MI, United States
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Shi F, Wang J, Shi J, Wu Z, Wang Q, Tang Z, He K, Shi Y, Shen D. Review of Artificial Intelligence Techniques in Imaging Data Acquisition, Segmentation, and Diagnosis for COVID-19. IEEE Rev Biomed Eng 2021; 14:4-15. [PMID: 32305937 DOI: 10.1109/rbme.2020.2987975] [Citation(s) in RCA: 489] [Impact Index Per Article: 163.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
The pandemic of coronavirus disease 2019 (COVID-19) is spreading all over the world. Medical imaging such as X-ray and computed tomography (CT) plays an essential role in the global fight against COVID-19, whereas the recently emerging artificial intelligence (AI) technologies further strengthen the power of the imaging tools and help medical specialists. We hereby review the rapid responses in the community of medical imaging (empowered by AI) toward COVID-19. For example, AI-empowered image acquisition can significantly help automate the scanning procedure and also reshape the workflow with minimal contact to patients, providing the best protection to the imaging technicians. Also, AI can improve work efficiency by accurate delineation of infections in X-ray and CT images, facilitating subsequent quantification. Moreover, the computer-aided platforms help radiologists make clinical decisions, i.e., for disease diagnosis, tracking, and prognosis. In this review paper, we thus cover the entire pipeline of medical imaging and analysis techniques involved with COVID-19, including image acquisition, segmentation, diagnosis, and follow-up. We particularly focus on the integration of AI with X-ray and CT, both of which are widely used in the frontline hospitals, in order to depict the latest progress of medical imaging and radiology fighting against COVID-19.
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Tayarani N MH. Applications of artificial intelligence in battling against covid-19: A literature review. CHAOS, SOLITONS, AND FRACTALS 2021; 142:110338. [PMID: 33041533 PMCID: PMC7532790 DOI: 10.1016/j.chaos.2020.110338] [Citation(s) in RCA: 59] [Impact Index Per Article: 19.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/21/2020] [Accepted: 10/01/2020] [Indexed: 05/14/2023]
Abstract
Colloquially known as coronavirus, the Severe Acute Respiratory Syndrome CoronaVirus 2 (SARS-CoV-2), that causes CoronaVirus Disease 2019 (COVID-19), has become a matter of grave concern for every country around the world. The rapid growth of the pandemic has wreaked havoc and prompted the need for immediate reactions to curb the effects. To manage the problems, many research in a variety of area of science have started studying the issue. Artificial Intelligence is among the area of science that has found great applications in tackling the problem in many aspects. Here, we perform an overview on the applications of AI in a variety of fields including diagnosis of the disease via different types of tests and symptoms, monitoring patients, identifying severity of a patient, processing covid-19 related imaging tests, epidemiology, pharmaceutical studies, etc. The aim of this paper is to perform a comprehensive survey on the applications of AI in battling against the difficulties the outbreak has caused. Thus we cover every way that AI approaches have been employed and to cover all the research until the writing of this paper. We try organize the works in a way that overall picture is comprehensible. Such a picture, although full of details, is very helpful in understand where AI sits in current pandemonium. We also tried to conclude the paper with ideas on how the problems can be tackled in a better way and provide some suggestions for future works.
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Affiliation(s)
- Mohammad-H Tayarani N
- Biocomputation Group, School of Computer Science, University of Hertfordshire, Hatfield, AL10 9AB, United Kingdom
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Bhargava A, Bansal A. Novel coronavirus (COVID-19) diagnosis using computer vision and artificial intelligence techniques: a review. MULTIMEDIA TOOLS AND APPLICATIONS 2021; 80:19931-19946. [PMID: 33686333 PMCID: PMC7928188 DOI: 10.1007/s11042-021-10714-5] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2020] [Revised: 10/23/2020] [Accepted: 02/10/2021] [Indexed: 05/07/2023]
Abstract
The universal transmission of pandemic COVID-19 (Coronavirus) causes an immediate need to commit in the fight across the whole human population. The emergencies for human health care are limited for this abrupt outbreak and abandoned environment. In this situation, inventive automation like computer vision (machine learning, deep learning, artificial intelligence), medical imaging (computed tomography, X-Ray) has developed an encouraging solution against COVID-19. In recent months, different techniques using image processing are done by various researchers. In this paper, a major review on image acquisition, segmentation, diagnosis, avoidance, and management are presented. An analytical comparison of the various proposed algorithm by researchers for coronavirus has been carried out. Also, challenges and motivation for research in the future to deal with coronavirus are indicated. The clinical impact and use of computer vision and deep learning were discussed and we hope that dermatologists may have better understanding of these areas from the study.
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Pinotsis DA, Miller EK. Differences in visually induced MEG oscillations reflect differences in deep cortical layer activity. Commun Biol 2020; 3:707. [PMID: 33239652 PMCID: PMC7688644 DOI: 10.1038/s42003-020-01438-7] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2020] [Accepted: 10/22/2020] [Indexed: 11/09/2022] Open
Abstract
Neural activity is organized at multiple scales, ranging from the cellular to the whole brain level. Connecting neural dynamics at different scales is important for understanding brain pathology. Neurological diseases and disorders arise from interactions between factors that are expressed in multiple scales. Here, we suggest a new way to link microscopic and macroscopic dynamics through combinations of computational models. This exploits results from statistical decision theory and Bayesian inference. To validate our approach, we used two independent MEG datasets. In both, we found that variability in visually induced oscillations recorded from different people in simple visual perception tasks resulted from differences in the level of inhibition specific to deep cortical layers. This suggests differences in feedback to sensory areas and each subject's hypotheses about sensations due to differences in their prior experience. Our approach provides a new link between non-invasive brain imaging data, laminar dynamics and top-down control.
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Affiliation(s)
- Dimitris A Pinotsis
- Centre for Mathematical Neuroscience and Psychology and Department of Psychology, City -University of London, London, EC1V 0HB, UK.
- The Picower Institute for Learning & Memory and Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology, Cambridge, MA, 02139, USA.
| | - Earl K Miller
- The Picower Institute for Learning & Memory and Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology, Cambridge, MA, 02139, USA
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Dehais F, Karwowski W, Ayaz H. Brain at Work and in Everyday Life as the Next Frontier: Grand Field Challenges for Neuroergonomics. FRONTIERS IN NEUROERGONOMICS 2020; 1:583733. [PMID: 38234310 PMCID: PMC10790928 DOI: 10.3389/fnrgo.2020.583733] [Citation(s) in RCA: 31] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/15/2020] [Accepted: 08/28/2020] [Indexed: 01/19/2024]
Affiliation(s)
- Frederic Dehais
- ISAE-SUPAERO, Université de Toulouse, Toulouse, France
- School of Biomedical Engineering, Science and Health Systems, Drexel University, Philadelphia, PA, United States
| | - Waldemar Karwowski
- Computational Neuroergonomics Laboratory, Department of Industrial Engineering and Management Systems, University of Central Florida, Orlando, FL, United States
| | - Hasan Ayaz
- School of Biomedical Engineering, Science and Health Systems, Drexel University, Philadelphia, PA, United States
- Drexel Solutions Institute, Drexel University, Philadelphia, PA, United States
- Department of Psychology, College of Arts and Sciences, Drexel University, Philadelphia, PA, United States
- Department of Family and Community Health, University of Pennsylvania, Philadelphia, PA, United States
- Center for Injury Research and Prevention, Children's Hospital of Philadelphia, Philadelphia, PA, United States
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Ho SY, Tan S, Sze CC, Wong L, Goh WWB. What can Venn diagrams teach us about doing data science better? INTERNATIONAL JOURNAL OF DATA SCIENCE AND ANALYTICS 2020. [DOI: 10.1007/s41060-020-00230-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
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Vaishya R, Javaid M, Haleem A, Khan I, Vaish A. Extending capabilities of artificial intelligence for decision-making and healthcare education. APOLLO MEDICINE 2020. [DOI: 10.4103/am.am_10_20] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
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Abdelsalam MM. Effective blood vessels reconstruction methodology for early detection and classification of diabetic retinopathy using OCTA images by artificial neural network. INFORMATICS IN MEDICINE UNLOCKED 2020. [DOI: 10.1016/j.imu.2020.100390] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022] Open
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