A database for publications published by researchers and students at SimulaMet.
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- Journal articles (142)
- Books (2)
- Edited books (1)
- Proceedings, refereed (175)
- Book chapters (6)
- Talks, keynote (1)
- PhD theses (5)
- Proceedings, non-refereed (2)
- Posters (9)
- Talks, invited (20)
- Talks, contributed (15)
- Public outreach (3)
- Master's theses (1)
- Miscellaneous (8)
Journal articles
Unsupervised EHR-based Phenotyping via Matrix and Tensor Decompositions
WIREs Data Mining and Knowledge Discovery 13 (2023).Status: Published
Unsupervised EHR-based Phenotyping via Matrix and Tensor Decompositions
Afilliation | Machine Learning |
Project(s) | Department of Data Science and Knowledge Discovery , DeCipher |
Publication Type | Journal Article |
Year of Publication | 2023 |
Journal | WIREs Data Mining and Knowledge Discovery |
Volume | 13 |
Number | e1494 |
Publisher | Wiley |
DOI | 10.1002/widm.1494 |
An Online Multiple Kernel Parallelizable Learning Scheme
IEEE Signal Processing Letters (2023).Status: Submitted
An Online Multiple Kernel Parallelizable Learning Scheme
The performance of reproducing kernel Hilbert space-based methods is known to be sensitive to the choice of the reproducing kernel. Choosing an adequate reproducing kernel can be challenging and computationally demanding, especially in data-rich tasks without prior information about the solution domain. In this paper, we propose a learning scheme that scalably combines several single kernel-based online methods to reduce the kernel-selection bias. The proposed learning scheme applies to any task formulated as a regularized empirical risk minimization convex problem. More specifically, our learning scheme is based on a multi-kernel learning formulation that can be applied to widen any single-kernel solution space, thus increasing the possibility of finding higher-performance solutions. In addition, it is parallelizable, allowing for the distribution of the computational load across different computing units. We show experimentally that the proposed learning scheme outperforms the combined single-kernel online methods separately in terms of the cumulative regularized least squares cost metric.
Afilliation | Machine Learning |
Project(s) | Signal and Information Processing for Intelligent Systems |
Publication Type | Journal Article |
Year of Publication | 2023 |
Journal | IEEE Signal Processing Letters |
Publisher | IEEE Signal Processing Letters |
URL | https://arxiv.org/pdf/2308.10101.pdf |
Online Joint Topology Identification and Signal Estimation from Streams with Missing Data
IEEE Transactions on Signal and Information Processing over Networks (2023).Status: Submitted
Online Joint Topology Identification and Signal Estimation from Streams with Missing Data
Afilliation | Machine Learning |
Project(s) | Signal and Information Processing for Intelligent Systems |
Publication Type | Journal Article |
Year of Publication | 2023 |
Journal | IEEE Transactions on Signal and Information Processing over Networks |
Publisher | IEEE Transactions on Signal and Information Processing over Networks |
Notes | This work is a joint collaboration between SimulaMet and University of Agder. This work was supported by the SFI Offshore Mechatronics grant 237896/O30 from the Research Council of Norway. |
Characterizing human postprandial metabolic response using multiway data analysis
bioRxiv (2023).Status: Submitted
Characterizing human postprandial metabolic response using multiway data analysis
Afilliation | Machine Learning |
Project(s) | Department of Data Science and Knowledge Discovery , TrACEr: Time-Aware ConstrainEd Multimodal Data Fusion |
Publication Type | Journal Article |
Year of Publication | 2023 |
Journal | bioRxiv |
Publisher | biorxiv |
DOI | 10.1101/2023.08.31.555521 |
Analyzing postprandial metabolomics data using multiway models: A simulation study
bioRxiv (2023).Status: Submitted
Analyzing postprandial metabolomics data using multiway models: A simulation study
Afilliation | Machine Learning |
Project(s) | Department of Data Science and Knowledge Discovery , TrACEr: Time-Aware ConstrainEd Multimodal Data Fusion |
Publication Type | Journal Article |
Year of Publication | 2023 |
Journal | bioRxiv |
Publisher | bioRxiv |
URL | https://www.biorxiv.org/content/10.1101/2022.12.19.521154v2 |
DOI | 10.1101/2022.12.19.521154 |
Efficient Interpretable Nonlinear Modeling for Multiple Time Series
IEEE Transactions on Signal Processing (2023).Status: Submitted
Efficient Interpretable Nonlinear Modeling for Multiple Time Series
Afilliation | Machine Learning |
Project(s) | Signal and Information Processing for Intelligent Systems |
Publication Type | Journal Article |
Year of Publication | 2023 |
Journal | IEEE Transactions on Signal Processing |
Publisher | IEEE Transactions on Signal Processing |
Posters
Concept Explanations for Deep Learning-Based Diabetic Retinopathy Diagnosis
Nordic AI Meet 2023, 2023.Status: Accepted
Concept Explanations for Deep Learning-Based Diabetic Retinopathy Diagnosis
Diabetic retinopathy (DR) is a common complication of diabetes that damages the eye and potentially leads to blindness. The severity and treatment choice of DR depends on the presence of medical findings in fundus images. Much work has been done in developing complex machine learning (ML) models to automatically diagnose DR from fundus images. However, their high level of complexity increases the demand for techniques improving human understanding of the ML models. Explainable artificial intelligence (XAI) methods can detect weaknesses in ML models and increase trust among end users. In the medical field, it is crucial to explain ML models in order to apply them in the clinic. While a plethora of XAI methods exists, heatmaps are typically applied for explaining ML models for DR diagnosis. Heatmaps highlight image areas that are regarded as important for the model when making a prediction. Even though heatmaps are popular, they can be less appropriate in the medical field. Testing with Concept Activation Vectors (TCAV), providing explanations based on human-friendly concepts, can be a more suitable alternative for explaining models for DR diagnosis, but it has not been thoroughly investigated for DR models. We develop a deep neural network for diagnosing DR from fundus images and apply TCAV for explaining the resulting model. Concept generation with and without masking is compared. Based on diagnostic criteria for DR, we evaluate the model’s concept ranking for different severity levels of DR. TCAV can explain individual images to gain insight into a specific case, or an entire class to evaluate overall consistency with diagnostic standards. The most important concepts for the DR model agree with diagnostic criteria for DR. No large differences are detected between the two concept generation approaches. TCAV is a flexible explanation method where human-friendly concepts provide insights and trust in ML models for medical image analyses, and it shows promising results for DR grading.
Afilliation | Machine Learning |
Project(s) | Department of Holistic Systems |
Publication Type | Poster |
Year of Publication | 2023 |
Place Published | Nordic AI Meet 2023 |
Keywords | concept-based explanations, diabetic retinopathy, Explainable artificial intelligence |
PARAFAC2-based coupled matrix and tensor factorizations with constraints
IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP). IEEE, 2023.Status: Published
PARAFAC2-based coupled matrix and tensor factorizations with constraints
Afilliation | Machine Learning |
Project(s) | Department of Data Science and Knowledge Discovery |
Publication Type | Poster |
Year of Publication | 2023 |
Place Published | IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP). IEEE |
Proceedings, refereed
Detecting human embryo cleavage stages using YOLO v5 object detection algorithm
In Nordic Artificial Intelligence Research and Development. Springer, 2023.Status: Published
Detecting human embryo cleavage stages using YOLO v5 object detection algorithm
Afilliation | Machine Learning |
Project(s) | Department of Holistic Systems |
Publication Type | Proceedings, refereed |
Year of Publication | 2023 |
Conference Name | Nordic Artificial Intelligence Research and Development |
Pagination | 81-93 |
Publisher | Springer |
Identifying Important Proteins in Meibomian Gland Dysfunction with Explainable Artificial Intelligence
In IEEE International Symposium on Computer-Based Medical Systems (IEEE CBMS2023), 2023.Status: Accepted
Identifying Important Proteins in Meibomian Gland Dysfunction with Explainable Artificial Intelligence
Meibomian gland dysfunction is the most common cause of dry eye disease, which is a prevalent condition that can damage the ocular surface and cause reduced vision and substantial pain. Meibum secreted from the meibomian glands makes up the majority of the outer, protective lipid layer of the tear film. Changes in the secreted meibum and markers of glandular damage can be detected through tear sampling.
Several studies have investigated the tear film protein expression in meibomian gland dysfunction, but less work apply machine learning to analyze the protein patterns. We use machine learning and methods from explainable artificial intelligence to detect potential clinically relevant proteins in meibomian gland dysfunction. Two different explainable artificial intelligence methods are compared. Several of the proteins found important in the models have been linked to dry eye disease in the past, while some are novel. Consequently, explainable artificial intelligence methods serve as a promising tool for screening for proteins that are relevant for meibomian gland dysfunction. By doing so, one may be able to discover new biomarkers and treatments, and gain a better understanding of how diseases develop.
Afilliation | Machine Learning |
Project(s) | Department of Holistic Systems |
Publication Type | Proceedings, refereed |
Year of Publication | 2023 |
Conference Name | IEEE International Symposium on Computer-Based Medical Systems (IEEE CBMS2023) |
Keywords | Dry eye disease, Explainable artificial intelligence, Machine learning, meibomian gland dysfunction, proteomics |