30 results on '"Calimeri, F"'
Search Results
2. Deep Survival Analysis for Healthcare: An Empirical Study on Post-Processing Techniques
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Calimeri, F, Dragoni, M, Stella, F, Archetti, A, Stranieri, F, Matteucci, M, Archetti A., Stranieri F., Matteucci M., Calimeri, F, Dragoni, M, Stella, F, Archetti, A, Stranieri, F, Matteucci, M, Archetti A., Stranieri F., and Matteucci M.
- Abstract
Survival analysis is a crucial tool in healthcare, allowing us to understand and predict time-to-event occurrences using statistical and machine-learning techniques. As deep learning gains traction in this domain, a specific challenge emerges: neural network-based survival models often produce discrete-time outputs, with the number of discretization points being much fewer than the unique time points in the dataset, leading to potentially inaccurate survival functions. To this end, our study explores post-processing techniques for survival functions. Specifically, interpolation and smoothing can act as effective regularization, enhancing performance metrics integrated over time, such as the Integrated Brier Score and the Cumulative Area-Under-the-Curve. We employed various regularization techniques on diverse real-world healthcare datasets to validate this claim. Empirical results suggest a significant performance improvement when using these post-processing techniques, underscoring their potential as a robust enhancement for neural network-based survival models. These findings suggest that integrating the strengths of neural networks with the non-discrete nature of survival tasks can yield more accurate and reliable survival predictions in clinical scenarios.
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- 2023
3. Towards a Transportable Causal Network Model Based on Observational Healthcare Data
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Calimeri, F, Dragoni, M, Stella, F, Bernasconi, A, Zanga, A, Lucas, P, Scutari, M, Bernasconi A., Zanga A., Lucas P. J. F., Scutari M., Stella F., Calimeri, F, Dragoni, M, Stella, F, Bernasconi, A, Zanga, A, Lucas, P, Scutari, M, Bernasconi A., Zanga A., Lucas P. J. F., Scutari M., and Stella F.
- Abstract
Over the last decades, many prognostic models based on artificial intelligence techniques have been used to provide detailed predictions in healthcare. Unfortunately, the real-world observational data used to train and validate these models are almost always affected by biases that can strongly impact the outcomes validity: two examples are values missing not-at-random and selection bias. Addressing them is a key element in achieving transportability and in studying the causal relationships that are critical in clinical decision making, going beyond simpler statistical approaches based on probabilistic association. In this context, we propose a novel approach that combines selection diagrams, missingness graphs, causal discovery and prior knowledge into a single graphical model to estimate the cardiovascular risk of adolescent and young females who survived breast cancer. We learn this model from data comprising two different cohorts of patients. The resulting causal network model is validated by expert clinicians in terms of risk assessment, accuracy and explainability, and provides a prognostic model that outperforms competing machine learning methods.
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- 2023
4. Fully automated approach of machine learning combined with deep learning: How to predict the onset of major cardiovascular events in NAFLD patients
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Cirella, A., primary, Sinatti, G., additional, Bracci, A., additional, Evangelista, L., additional, Bruno, P., additional, Santini, S.J., additional, Greco, G., additional, Guzzo, A., additional, Calimeri, F., additional, Di Cesare, E., additional, and Balsano, C., additional
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- 2023
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5. Risk Assessment of Lymph Node Metastases in Endometrial Cancer Patients: A Causal Approach
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Calimeri, F, Dragoni, M, Stella, F, Zanga, A, Bernasconi, A, Lucas, P, Pijnenborg, H, Reijnen, C, Scutari, M, Zanga A., Bernasconi A., Lucas P. J. F., Pijnenborg H., Reijnen C., Scutari M., Stella F., Calimeri, F, Dragoni, M, Stella, F, Zanga, A, Bernasconi, A, Lucas, P, Pijnenborg, H, Reijnen, C, Scutari, M, Zanga A., Bernasconi A., Lucas P. J. F., Pijnenborg H., Reijnen C., Scutari M., and Stella F.
- Abstract
Assessing the pre-operative risk of lymph node metastases in endometrial cancer patients is a complex and challenging task. In principle, machine learning and deep learning models are flexible and expressive enough to capture the dynamics of clinical risk assessment. However, in this setting we are limited to observational data with quality issues, missing values, small sample size and high dimensionality: we cannot reliably learn such models from limited observational data with these sources of bias. Instead, we choose to learn a causal Bayesian network to mitigate the issues above and to leverage the prior knowledge on endometrial cancer available from clinicians and physicians. We introduce a causal discovery algorithm for causal Bayesian networks based on bootstrap resampling, as opposed to the single imputation used in related works. Moreover, we include a context variable to evaluate whether selection bias results in learning spurious associations. Finally, we discuss the strengths and limitations of our findings in light of the presence of missing data that may be missing-not-at-random, which is common in real-world clinical settings.
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- 2022
6. AI-based estimation of cardiovascular risk in MASLD patients using non-contrast CT imaging and clinical data.
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Cirella, A., Bruno, P., Caputo, V., Palumbo, P., Santini, SJ, Quarta, A., Calimeri, F., Cesare, E. Di, and Balsano, C.
- Abstract
Accurate cardiovascular risk (CVR) assessment is crucial for apparently healthy individuals. Metabolic-dysfunction associated steatotic liver disease (MASLD), formerly NAFLD, affects 38% of the population worldwide and the cardiovascular diseases (CVD) represent the primary cause of death in these patients, suggesting that MASLD could be considered as an independent risk factor for a novel CVR assessment score. our study aims at modelling non-contrast Cardio-CT scans and clinical data with artificial intelligence (AI) approaches to develop a predictive model for CVR assessment in MASLD. A retrospective study analyzed clinical and imaging data from 174 patients who underwent Cardio-CT in S.Salvatore Hospital in L'Aquila and S.Pertini Hospital in Rome. Based on Coronary Artery Calcium (CAC) scores and Hunsfield units (HU), 50% of patients were affected by MASLD and CVD, the rest of patients were healthy controls. 96 Patients were enlisted for training and 78 for the internal validation cohort to obtain performance metrics. A U-Net convolutional neural network was used to segment liver parenchyma, and a Gray-Level Co-occurrence Matrix (GLCM) was applied to extract radiomic features and evaluate levels of steatosis. The relevant features were combined with clinical data and used as input into a multilayer perceptron neural network to perform binary classification of CAC. Our trained algorithm automatically defines the severity of CAC, based on liver steatosis and patient clinical data, thereby assessing the level of CVR. Notably, the related important features were represented by dyslipidemia, diabetes and age. By testing images and clinical data from both centers, the most performing model was the Stacking Model achieving an AUC of 80%. Our AI model estimates CVR in MASLD patients undergoing abdominal CT, integrating radiomic and clinical data, it could be useful also for cirrhotic patients undergoing HCC screening or awaiting OLT. [ABSTRACT FROM AUTHOR]
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- 2025
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7. Experimenting with parallelism for the instantiation of ASP programs
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Calimeri, F., Perri, S., and Ricca, F.
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- 2008
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8. Towards solving path planning in keyhole neurosurgery with answer set programming
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Corbetta, V., Segato, A., Zangari, J., Perri, S., Calimeri, F., and de Momi, E.
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Robotic Steerable Catheter ,Artificial Intelligence ,Path Planning - Published
- 2021
9. Disentangling deontic positions and abilities: A modal analysis
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Sileno, G., Pascucci, M., Calimeri, F., Perri, S., Zumpano, E., and System and Network Engineering (IVI, FNWI)
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Computational systems are traditionally approached from control-oriented perspectives; however, as soon as we move from central- ized to decentralized computational infrastructures, direct control needs to be replaced by distributed coordination mechanisms that are on par with institutional constructs observable in human societies (contracts, agreements, enforcement mechanisms, etc.). This paper presents a for- malization of Hohfeld's framework building upon a logic whose language includes primitive operators of ability and parametric deontic operators. The proposal is meant to highlight the fundamental interaction between deontic and potestative concepts and contains proofs of soundness and completeness with respect to a class of relational models.
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- 2020
10. Exploiting Heterogeneous Data for Automatic Classification of Multiple Sclerosis Clinical Forms through Neural Networks
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Marzullo, A., Stamile, Claudio, Kocevar, G., Calimeri, F., Terracina, G., Durand-Dubief, Françoise, Sappey-Marinier, Dominique, RMN et optique : De la mesure au biomarqueur, Centre de Recherche en Acquisition et Traitement de l'Image pour la Santé (CREATIS), Université Jean Monnet [Saint-Étienne] (UJM)-Hospices Civils de Lyon (HCL)-Institut National des Sciences Appliquées de Lyon (INSA Lyon), Université de Lyon-Institut National des Sciences Appliquées (INSA)-Université de Lyon-Institut National des Sciences Appliquées (INSA)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Jean Monnet [Saint-Étienne] (UJM)-Hospices Civils de Lyon (HCL)-Institut National des Sciences Appliquées de Lyon (INSA Lyon), Université de Lyon-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM), and Hospices Civils de Lyon, Departement de Neurologie (HCL)
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[SDV.IB.IMA]Life Sciences [q-bio]/Bioengineering/Imaging ,ComputingMilieux_MISCELLANEOUS - Abstract
International audience
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- 2019
11. Exploitation de données hétérogènes d'IRM de diffusion pour la classification automatique des formes cliniques de sclérose en plaques par une nouvelle approche de réseaux de neurones
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Marzullo, A., Stamile, Claudio, Kocevar, G., Calimeri, F., Terracina, G., Durand-Dubief, Françoise, Sappey-Marinier, Dominique, RMN et optique : De la mesure au biomarqueur, Centre de Recherche en Acquisition et Traitement de l'Image pour la Santé (CREATIS), Université Jean Monnet [Saint-Étienne] (UJM)-Hospices Civils de Lyon (HCL)-Institut National des Sciences Appliquées de Lyon (INSA Lyon), Université de Lyon-Institut National des Sciences Appliquées (INSA)-Université de Lyon-Institut National des Sciences Appliquées (INSA)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Jean Monnet [Saint-Étienne] (UJM)-Hospices Civils de Lyon (HCL)-Institut National des Sciences Appliquées de Lyon (INSA Lyon), Université de Lyon-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM), and Hospices Civils de Lyon, Departement de Neurologie (HCL)
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[SDV.IB.IMA]Life Sciences [q-bio]/Bioengineering/Imaging ,ComputingMilieux_MISCELLANEOUS - Abstract
International audience
- Published
- 2019
12. Interval Temporal Logic Decision Tree Learning
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Calimeri, F, Leone, N, Manna, M, Brunello, A, Sciavicco, G, Stan, I, Stan, IE, Calimeri, F, Leone, N, Manna, M, Brunello, A, Sciavicco, G, Stan, I, and Stan, IE
- Abstract
Decision trees are simple, yet powerful, classification models used to classify categorical and numerical data, and, despite their simplicity, they are commonly used in operations research and management, as well as in knowledge mining. From a logical point of view, a decision tree can be seen as a structured set of logical rules written in propositional logic. Since knowledge mining is rapidly evolving towards temporal knowledge mining, and since in many cases temporal information is best described by interval temporal logics, propositional logic decision trees may evolve towards interval temporal logic decision trees. In this paper, we define the problem of interval temporal logic decision tree learning, and propose a solution that generalizes classical decision tree learning.
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- 2019
13. The DLV System
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Leone, N, Pfeifer, G, Faber, W, Calimeri, F, Dell'Armi, T, Eiter, T, Gottlob, G, Ianni, G, Ielpa, G, Koch, C, Perri, S, and Polleres, A
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- 2016
14. Segmentation of vessel tree from cine-angiography images for intraoperative clinical evaluation
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Bruno, P., Zaffino, P., Scaramuzzino, S., Salvatore De Rosa, Indolfi, C., Calimeri, F., and Spadea, M. F.
15. Large-scale reasoning on expressive horn ontologies
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Allocca, C., Calimeri, F., Civili, C., Costabile, R., Cuteri, B., Fiorentino, A., Fuscà, D., Stefano Germano, Laboccetta, G., Manna, M., Perri, S., Reale, K., Ricca, F., Veltri, P., and Zangari, J.
16. OntoDLP: A logic formalism for knowledge representation
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Calimeri, F., Galizia, S., Massimo Ruffolo, and Rullo, P.
17. Explaining actual causation in terms of possible causal processes
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Bart Bogaerts, Marc Denecker, Joost Vennekens, Calimeri, F, Leone, N, Manna, M, Calimeri, Francesco, Leone, Nicola, Manna, Marco, Informatics and Applied Informatics, and Artificial Intelligence
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Cognitive science ,Computer science ,060302 philosophy ,0202 electrical engineering, electronic engineering, information engineering ,020201 artificial intelligence & image processing ,Point (geometry) ,06 humanities and the arts ,02 engineering and technology ,Causation ,0603 philosophy, ethics and religion ,Domain (software engineering) - Abstract
We point to several kinds of knowledge that play an important role in controversial examples of actual causation. One is nowledge about the causal mechanisms in the domain and the causal processes that result from them. Another is knowledge of what conditions trigger such mechanisms and what conditions can make them fail. We argue that to solve questions of actual causation, such knowledge needs to be made explicit. To this end, we develop a new language in the family of CP-logic, in which causal mechanisms and causal processes are formal objects. We then build a framework for actual causation in which various "production" notions of actual causation are defined. Contrary to counterfactual definitions, these notions are defined directly in terms of the (formal) causal process that causes the possible world. ispartof: pages:214-230 ispartof: 16th Edition of the European Conference on Logics in Artificial Intelligence vol:11468 pages:214-230 ispartof: European Conference on Logics in Artificial Intelligence location:May 7-11, 2019, Rende, Italy date:7 May - 11 May 2019 status: published
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- 2019
18. Axiomatic systems and topological semantics for intuitionistic temporal logic
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David Fernández-Duque, Fabián Romero, Joseph Boudou, Martín Diéguez, Calimeri, F., Leone, N., and Manna, M.
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FOS: Computer and information sciences ,Computer Science - Logic in Computer Science ,Theoretical computer science ,Computer science ,0102 computer and information sciences ,02 engineering and technology ,01 natural sciences ,Linear temporal logic ,Computer Science::Logic in Computer Science ,020204 information systems ,FOS: Mathematics ,0202 electrical engineering, electronic engineering, information engineering ,Temporal logic ,Logic programming ,Soundness ,Functional programming ,Interpretation (logic) ,Axiomatic system ,Mathematics - Logic ,Logic in Computer Science (cs.LO) ,Mathematics::Logic ,TheoryofComputation_MATHEMATICALLOGICANDFORMALLANGUAGES ,Type theory ,010201 computation theory & mathematics ,TheoryofComputation_LOGICSANDMEANINGSOFPROGRAMS ,Logic (math.LO) - Abstract
The importance of intuitionistic temporal logics in Computer Science and Artificial Intelligence has become increasingly clear in the last few years. From the proof-theory point of view, intuitionistic temporal logics have made it possible to extend functional languages with new features via type theory, while from its semantical perspective several logics for reasoning about dynamical systems and several semantics for logic programming have their roots in this framework. In this paper we propose four axiomatic systems for intuitionistic linear temporal logic and show that each of these systems is sound for a class of structures based either on Kripke frames or on dynamic topological systems. Our topological semantics features a new interpretation for the ‘henceforth’ modality that is a natural intuitionistic variant of the classical one. Using the soundness results, we show that the four logics obtained from the axiomatic systems are distinct.
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- 2019
19. Special issue on learning from multiple data sources for decision making in health care.
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Stella F, Calimeri F, and Dragoni M
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- Humans, Decision Making, Machine Learning, Medical Informatics methods, Information Sources, Delivery of Health Care
- Abstract
Competing Interests: Declaration of competing interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper.
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- 2024
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20. Beyond rankings: Learning (more) from algorithm validation.
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Roß T, Bruno P, Reinke A, Wiesenfarth M, Koeppel L, Full PM, Pekdemir B, Godau P, Trofimova D, Isensee F, Adler TJ, Tran TN, Moccia S, Calimeri F, Müller-Stich BP, Kopp-Schneider A, and Maier-Hein L
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- Humans, Image Processing, Computer-Assisted methods, Algorithms, Laparoscopy
- Abstract
Challenges have become the state-of-the-art approach to benchmark image analysis algorithms in a comparative manner. While the validation on identical data sets was a great step forward, results analysis is often restricted to pure ranking tables, leaving relevant questions unanswered. Specifically, little effort has been put into the systematic investigation on what characterizes images in which state-of-the-art algorithms fail. To address this gap in the literature, we (1) present a statistical framework for learning from challenges and (2) instantiate it for the specific task of instrument instance segmentation in laparoscopic videos. Our framework relies on the semantic meta data annotation of images, which serves as foundation for a General Linear Mixed Models (GLMM) analysis. Based on 51,542 meta data annotations performed on 2,728 images, we applied our approach to the results of the Robust Medical Instrument Segmentation Challenge (ROBUST-MIS) challenge 2019 and revealed underexposure, motion and occlusion of instruments as well as the presence of smoke or other objects in the background as major sources of algorithm failure. Our subsequent method development, tailored to the specific remaining issues, yielded a deep learning model with state-of-the-art overall performance and specific strengths in the processing of images in which previous methods tended to fail. Due to the objectivity and generic applicability of our approach, it could become a valuable tool for validation in the field of medical image analysis and beyond., Competing Interests: Declaration of Competing Interest The authors declare the following financial interests/personal relationships which may be considered as potential competing interests: Part of this work was funded by the Helmholtz Imaging Platform (HIP), a platform of the Helmholtz Incubator on Information and Data Science and by the Surgical Oncology Program of the National Center for Tumor Diseases (NCT) Heidelberg., (Copyright © 2023 The Authors. Published by Elsevier B.V. All rights reserved.)
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- 2023
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21. Radiomics-Based Machine Learning Model for Predicting Overall and Progression-Free Survival in Rare Cancer: A Case Study for Primary CNS Lymphoma Patients.
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Destito M, Marzullo A, Leone R, Zaffino P, Steffanoni S, Erbella F, Calimeri F, Anzalone N, De Momi E, Ferreri AJM, Calimeri T, and Spadea MF
- Abstract
Primary Central Nervous System Lymphoma (PCNSL) is an aggressive neoplasm with a poor prognosis. Although therapeutic progresses have significantly improved Overall Survival (OS), a number of patients do not respond to HD-MTX-based chemotherapy (15-25%) or experience relapse (25-50%) after an initial response. The reasons underlying this poor response to therapy are unknown. Thus, there is an urgent need to develop improved predictive models for PCNSL. In this study, we investigated whether radiomics features can improve outcome prediction in patients with PCNSL. A total of 80 patients diagnosed with PCNSL were enrolled. A patient sub-group, with complete Magnetic Resonance Imaging (MRI) series, were selected for the stratification analysis. Following radiomics feature extraction and selection, different Machine Learning (ML) models were tested for OS and Progression-free Survival (PFS) prediction. To assess the stability of the selected features, images from 23 patients scanned at three different time points were used to compute the Interclass Correlation Coefficient (ICC) and to evaluate the reproducibility of each feature for both original and normalized images. Features extracted from Z-score normalized images were significantly more stable than those extracted from non-normalized images with an improvement of about 38% on average ( p -value < 10-12). The area under the ROC curve (AUC) showed that radiomics-based prediction overcame prediction based on current clinical prognostic factors with an improvement of 23% for OS and 50% for PFS, respectively. These results indicate that radiomics features extracted from normalized MR images can improve prognosis stratification of PCNSL patients and pave the way for further study on its potential role to drive treatment choice.
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- 2023
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22. Lesion segmentation in lung CT scans using unsupervised adversarial learning.
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Sherwani MK, Marzullo A, De Momi E, and Calimeri F
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- Humans, Image Processing, Computer-Assisted methods, Lung diagnostic imaging, Radionuclide Imaging, Thorax, Tomography, X-Ray Computed methods, COVID-19 diagnostic imaging
- Abstract
Lesion segmentation in medical images is difficult yet crucial for proper diagnosis and treatment. Identifying lesions in medical images is costly and time-consuming and requires highly specialized knowledge. For this reason, supervised and semi-supervised learning techniques have been developed. Nevertheless, the lack of annotated data, which is common in medical imaging, is an issue; in this context, interesting approaches can use unsupervised learning to accurately distinguish between healthy tissues and lesions, training the network without using the annotations. In this work, an unsupervised learning technique is proposed to automatically segment coronavirus disease 2019 (COVID-19) lesions on 2D axial CT lung slices. The proposed approach uses the technique of image translation to generate healthy lung images based on the infected lung image without the need for lesion annotations. Attention masks are used to improve the quality of the segmentation further. Experiments showed the capability of the proposed approaches to segment the lesions, and it outperforms a range of unsupervised lesion detection approaches. The average reported results for the test dataset based on the metrics: Dice Score, Sensitivity, Specificity, Structure Measure, Enhanced-Alignment Measure, and Mean Absolute Error are 0.695, 0.694, 0.961, 0.791, 0.875, and 0.082 respectively. The achieved results are promising compared with the state-of-the-art and could constitute a valuable tool for future developments., (© 2022. The Author(s).)
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- 2022
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23. Editorial: Hot topic: Reducing operating times and complication rates through robot-assisted surgery.
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Cafolla D, Calimeri F, Cao H, Russo M, Sappey-Marinier D, and Zaffino P
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- 2022
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24. Towards realistic laparoscopic image generation using image-domain translation.
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Marzullo A, Moccia S, Catellani M, Calimeri F, and Momi E
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- Algorithms, Humans, Neural Networks, Computer, Image Processing, Computer-Assisted, Laparoscopy
- Abstract
Background and ObjectivesOver the last decade, Deep Learning (DL) has revolutionized data analysis in many areas, including medical imaging. However, there is a bottleneck in the advancement of DL in the surgery field, which can be seen in a shortage of large-scale data, which in turn may be attributed to the lack of a structured and standardized methodology for storing and analyzing surgical images in clinical centres. Furthermore, accurate annotations manually added are expensive and time consuming. A great help can come from the synthesis of artificial images; in this context, in the latest years, the use of Generative Adversarial Neural Networks (GANs) achieved promising results in obtaining photo-realistic images. MethodsIn this study, a method for Minimally Invasive Surgery (MIS) image synthesis is proposed. To this aim, the generative adversarial network pix2pix is trained to generate paired annotated MIS images by transforming rough segmentation of surgical instruments and tissues into realistic images. An additional regularization term was added to the original optimization problem, in order to enhance realism of surgical tools with respect to the background. Results Quantitative and qualitative (i.e., human-based) evaluations of generated images have been carried out in order to assess the effectiveness of the method. ConclusionsExperimental results show that the proposed method is actually able to translate MIS segmentations to realistic MIS images, which can in turn be used to augment existing data sets and help at overcoming the lack of useful images; this allows physicians and algorithms to take advantage from new annotated instances for their training., Competing Interests: Declaration of Competing Interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper., (Copyright © 2020. Published by Elsevier B.V.)
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- 2021
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25. An Open-Source COVID-19 CT Dataset with Automatic Lung Tissue Classification for Radiomics.
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Zaffino P, Marzullo A, Moccia S, Calimeri F, De Momi E, Bertucci B, Arcuri PP, and Spadea MF
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The coronavirus disease 19 (COVID-19) pandemic is having a dramatic impact on society and healthcare systems. In this complex scenario, lung computerized tomography (CT) may play an important prognostic role. However, datasets released so far present limitations that hamper the development of tools for quantitative analysis. In this paper, we present an open-source lung CT dataset comprising information on 50 COVID-19-positive patients. The CT volumes are provided along with (i) an automatic threshold-based annotation obtained with a Gaussian mixture model (GMM) and (ii) a scoring provided by an expert radiologist. This score was found to significantly correlate with the presence of ground glass opacities and the consolidation found with GMM. The dataset is freely available in an ITK-based file format under the CC BY-NC 4.0 license. The code for GMM fitting is publicly available, as well. We believe that our dataset will provide a unique opportunity for researchers working in the field of medical image analysis, and hope that its release will lay the foundations for the successfully implementation of algorithms to support clinicians in facing the COVID-19 pandemic.
- Published
- 2021
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26. Artificial intelligence for brain diseases: A systematic review.
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Segato A, Marzullo A, Calimeri F, and De Momi E
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Artificial intelligence (AI) is a major branch of computer science that is fruitfully used for analyzing complex medical data and extracting meaningful relationships in datasets, for several clinical aims. Specifically, in the brain care domain, several innovative approaches have achieved remarkable results and open new perspectives in terms of diagnosis, planning, and outcome prediction. In this work, we present an overview of different artificial intelligent techniques used in the brain care domain, along with a review of important clinical applications. A systematic and careful literature search in major databases such as Pubmed, Scopus, and Web of Science was carried out using "artificial intelligence" and "brain" as main keywords. Further references were integrated by cross-referencing from key articles. 155 studies out of 2696 were identified, which actually made use of AI algorithms for different purposes (diagnosis, surgical treatment, intra-operative assistance, and postoperative assessment). Artificial neural networks have risen to prominent positions among the most widely used analytical tools. Classic machine learning approaches such as support vector machine and random forest are still widely used. Task-specific algorithms are designed for solving specific problems. Brain images are one of the most used data types. AI has the possibility to improve clinicians' decision-making ability in neuroscience applications. However, major issues still need to be addressed for a better practical use of AI in the brain. To this aim, it is important to both gather comprehensive data and build explainable AI algorithms., (© 2020 Author(s).)
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- 2020
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27. Data reduction and data visualization for automatic diagnosis using gene expression and clinical data.
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Bruno P, Calimeri F, Kitanidis AS, and De Momi E
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- Gene Expression, Humans, Data Visualization, Neural Networks, Computer
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Accurate diagnoses of specific diseases require, in general, the review of the whole medical history of a patient. Currently, even though many advances have been made for disease monitoring, domain experts are still requested to perform direct analyses in order to get a precise classification, thus implying significant efforts and costs. In this work we present a framework for automated diagnosis based on high-dimensional gene expression and clinical data. Given that high-dimensional data can be difficult to analyze and computationally expensive to process, we first perform data reduction to transform high-dimensional representations of data into a lower dimensional space, yet keeping them meaningful for our purposes. We used then different data visualization techniques to embed complex pieces of information in 2-D images, that are in turn used to perform diagnosis relying on deep learning approaches. Experimental analyses show that the proposed method achieves good performance, featuring a prediction Recall value between 91% and 99%., (Copyright © 2020 Elsevier B.V. All rights reserved.)
- Published
- 2020
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28. Prediction of Multiple Sclerosis Patient Disability from Structural Connectivity using Convolutional Neural Networks.
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Marzullo A, Kocevar G, Stamile C, Calimeri F, Terracina G, Durand-Dubief F, and Sappey-Marinier D
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- Brain diagnostic imaging, Brain pathology, Gray Matter diagnostic imaging, Gray Matter pathology, Humans, Image Processing, Computer-Assisted, Magnetic Resonance Imaging, Multiple Sclerosis diagnostic imaging, Disability Evaluation, Multiple Sclerosis physiopathology, Neural Networks, Computer
- Abstract
Prediction of disability progression in multiple sclerosis patients is a critical component of their management. In particular, one challenge is to identify and characterize a patient profile who may benefit of efficient treatments. However, it is not yet clear whether a particular relation exists between the brain structure and the disability status.This work aims at producing a fully automatic model for the expanded disability status score estimation, given the brain structural connectivity representation of a multiple sclerosis patient. The task is addressed by first extracting the connectivity graph, obtained by combining brain grey matter parcellation and tractography extracted from Diffusion and T1-weighted Magnetic Resonance (MR) images, and then processing it via a convolutional neural network (CNN) in order to compute the predicted score. Experiments show that the herein proposed approach achieves promising results, thus resulting as an important step forward on the road to better predict the evolution of the disease.
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- 2019
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29. Classification of Multiple Sclerosis Clinical Profiles via Graph Convolutional Neural Networks.
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Marzullo A, Kocevar G, Stamile C, Durand-Dubief F, Terracina G, Calimeri F, and Sappey-Marinier D
- Abstract
Recent advances in image acquisition and processing techniques, along with the success of novel deep learning architectures, have given the opportunity to develop innovative algorithms capable to provide a better characterization of neurological related diseases. In this work, we introduce a neural network based approach to classify Multiple Sclerosis (MS) patients into four clinical profiles. Starting from their structural connectivity information, obtained by diffusion tensor imaging and represented as a graph, we evaluate the classification performances using unweighted and weighted connectivity matrices. Furthermore, we investigate the role of graph-based features for a better characterization and classification of the pathology. Ninety MS patients (12 clinically isolated syndrome, 30 relapsing-remitting, 28 secondary-progressive, and 20 primary-progressive) along with 24 healthy controls, were considered in this study. This work shows the great performances achieved by neural networks methods in the classification of the clinical profiles. Furthermore, it shows local graph metrics do not improve the classification results suggesting that the latent features created by the neural network in its layers have a much important informative content. Finally, we observe that graph weights representation of brain connections preserve important information to discriminate between clinical forms.
- Published
- 2019
- Full Text
- View/download PDF
30. Novel Method for Automated Analysis of Retinal Images: Results in Subjects with Hypertensive Retinopathy and CADASIL.
- Author
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Cavallari M, Stamile C, Umeton R, Calimeri F, and Orzi F
- Subjects
- Aged, Algorithms, CADASIL pathology, Female, Humans, Hypertensive Retinopathy pathology, Male, Middle Aged, Retinal Vessels pathology, CADASIL diagnosis, Diagnostic Techniques, Ophthalmological, Hypertensive Retinopathy diagnosis, Image Interpretation, Computer-Assisted methods, Retina pathology
- Abstract
Morphological analysis of the retinal vessels by fundoscopy provides noninvasive means for detecting and staging systemic microvascular damage. However, full exploitation of fundoscopy in clinical settings is limited by paucity of quantitative, objective information obtainable through the observer-driven evaluations currently employed in routine practice. Here, we report on the development of a semiautomated, computer-based method to assess retinal vessel morphology. The method allows simultaneous and operator-independent quantitative assessment of arteriole-to-venule ratio, tortuosity index, and mean fractal dimension. The method was implemented in two conditions known for being associated with retinal vessel changes: hypertensive retinopathy and Cerebral Autosomal Dominant Arteriopathy with Subcortical Infarcts and Leukoencephalopathy (CADASIL). The results showed that our approach is effective in detecting and quantifying the retinal vessel abnormalities. Arteriole-to-venule ratio, tortuosity index, and mean fractal dimension were altered in the subjects with hypertensive retinopathy or CADASIL with respect to age- and gender-matched controls. The interrater reliability was excellent for all the three indices (intraclass correlation coefficient ≥ 85%). The method represents simple and highly reproducible means for discriminating pathological conditions characterized by morphological changes of retinal vessels. The advantages of our method include simultaneous and operator-independent assessment of different parameters and improved reliability of the measurements.
- Published
- 2015
- Full Text
- View/download PDF
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