Kernel ridge regression, KRR, is a generalization of linear ridge regression that is non-linear in the data, but linear in the parameters. The solution can be obtained either as a closed-form solution, which includes a matrix inversion, or iteratively through gradient descent. Using the iterative approach opens up for changing the kernel during training, something that is investigated in this paper. We theoretically address the effects this has on model complexity and generalization. Based on our findings, we propose an update scheme for the bandwidth of translational-invariant kernels, where we let the bandwidth decrease to zero during training, thus circumventing the need for hyper-parameter selection. We demonstrate on real and synthetic data how decreasing the bandwidth during training outperforms using a constant bandwidth, selected by cross-validation and marginal likelihood maximization. We also show theoretically and empirically that using a decreasing bandwidth, we are able to achieve both zero training error in combination with good generalization, and a double descent behavior, phenomena that do not occur for KRR with constant bandwidth but are known to appear for neural networks.

Modern industrial facilities generate large volumes of raw sensor data during the production process. This data is used to monitor and control the processes and can be analyzed to detect and predict process abnormalities. Typically, the data has to be annotated by experts in order to be used in predictive modeling. However, manual annotation of large amounts of data can be difficult in industrial settings. In this paper, we propose SensorSCAN, a novel method for unsupervised fault detection and diagnosis, designed for industrial chemical process monitoring. We demonstrate our model's performance on two publicly available datasets of the Tennessee Eastman Process with various faults. The results show that our method significantly outperforms existing approaches (+0.2-0.3 TPR for a fixed FPR) and effectively detects most of the process faults without expert annotation. Moreover, we show that the model fine-tuned on a small fraction of labeled data nearly reaches the performance of a SOTA model trained on the full dataset. We also demonstrate that our method is suitable for real-world applications where the number of faults is not known in advance. The code is available at https://github.com/AIRI-Institute/sensorscan.

RNA protein Interactions (RPIs) play an important role in biological systems. Recently, we have enumerated the RPIs at the residue level and have elucidated the minimum structural unit (MSU) in these interactions to be a stretch of five residues (Nucleotides/amino acids). Pseudouridine is the most frequent modification in RNA. The conversion of uridine to pseudouridine involves interactions between pseudouridine synthase and RNA. The existing models to predict the pseudouridine sites in a given RNA sequence mainly depend on user-defined features such as mono and dinucleotide composition/propensities of RNA sequences. Predicting pseudouridine sites is a non-linear classification problem with limited data points. Deep Learning models are efficient discriminators when the data set size is reasonably large and fail when there is a paucity of data ($<1000$ samples). To mitigate this problem, we propose a Support Vector Machine (SVM) Kernel based on utility theory from Economics, and using data-driven parameters (i.e. MSU) as features. For this purpose, we have used position-specific tri/quad/pentanucleotide composition/propensity (PSPC/PSPP) besides nucleotide and dineculeotide composition as features. SVMs are known to work well in small data regimes and kernels in SVM are designed to classify non-linear data. The proposed model outperforms the existing state-of-the-art models significantly (10%-15% on average).

Artificial intelligence (AI) models trained using medical images for clinical tasks often exhibit bias in the form of disparities in performance between subgroups. Since not all sources of biases in real-world medical imaging data are easily identifiable, it is challenging to comprehensively assess how those biases are encoded in models, and how capable bias mitigation methods are at ameliorating performance disparities. In this article, we introduce a novel analysis framework for systematically and objectively investigating the impact of biases in medical images on AI models. We developed and tested this framework for conducting controlled in silico trials to assess bias in medical imaging AI using a tool for generating synthetic magnetic resonance images with known disease effects and sources of bias. The feasibility is showcased by using three counterfactual bias scenarios to measure the impact of simulated bias effects on a convolutional neural network (CNN) classifier and the efficacy of three bias mitigation strategies. The analysis revealed that the simulated biases resulted in expected subgroup performance disparities when the CNN was trained on the synthetic datasets. Moreover, reweighing was identified as the most successful bias mitigation strategy for this setup, and we demonstrated how explainable AI methods can aid in investigating the manifestation of bias in the model using this framework. Developing fair AI models is a considerable challenge given that many and often unknown sources of biases can be present in medical imaging datasets. In this work, we present a novel methodology to objectively study the impact of biases and mitigation strategies on deep learning pipelines, which can support the development of clinical AI that is robust and responsible.

We propose a prognostic stratum matching framework that addresses the deficiencies of Randomized trial data subgroup analysis and transforms ObservAtional Data to be used as if they were randomized, thus paving the road for precision medicine. Our approach counters the effects of unobserved confounding in observational data by correcting the estimated probabilities of the outcome under a treatment through a novel two-step process. These probabilities are then used to train Optimal Policy Trees (OPTs), which are decision trees that optimally assign treatments to subgroups of patients based on their characteristics. This facilitates the creation of clinically intuitive treatment recommendations. We applied our framework to observational data of patients with gastrointestinal stromal tumors (GIST) and validated the OPTs in an external cohort using the sensitivity and specificity metrics. We show that these recommendations outperformed those of experts in GIST. We further applied the same framework to randomized clinical trial (RCT) data of patients with extremity sarcomas. Remarkably, despite the initial trial results suggesting that all patients should receive treatment, our framework, after addressing imbalances in patient distribution due to the trial's small sample size, identified through the OPTs a subset of patients with unique characteristics who may not require treatment. Again, we successfully validated our recommendations in an external cohort.

Clinical texts, such as admission notes, discharge summaries, and progress notes, contain rich and valuable information that can be used for various clinical outcome prediction tasks. However, applying large language models, such as BERT-based models, to clinical texts poses two major challenges: the limitation of input length and the diversity of data sources. This paper proposes a novel method to preserve the knowledge of long clinical texts using aggregated ensembles of large language models. Unlike previous studies which use model ensembling or text aggregation methods separately, we combine ensemble learning with text aggregation and train multiple large language models on two clinical outcome tasks: mortality prediction and length of stay prediction. We show that our method can achieve better results than baselines, ensembling, and aggregation individually, and can improve the performance of large language models while handling long inputs and diverse datasets. We conduct extensive experiments on the admission notes from the MIMIC-III clinical database by combining multiple unstructured and high-dimensional datasets, demonstrating our method's effectiveness and superiority over existing approaches. We also provide a comprehensive analysis and discussion of our results, highlighting our method's applications and limitations for future research in the domain of clinical healthcare. The results and analysis of this study is supportive of our method assisting in clinical healthcare systems by enabling clinical decision-making with robust performance overcoming the challenges of long text inputs and varied datasets.

Deepfake attacks, malicious manipulation of media containing people, are a serious concern for society. Conventional deepfake detection methods train supervised classifiers to distinguish real media from previously encountered deepfakes. Such techniques can only detect deepfakes similar to those previously seen, but not zeroday (previously unseen) attack types. As current deepfake generation techniques are changing at a breathtaking pace, new attack types are proposed frequently, making this a major issue. Our main observations are that: i) in many effective deepfake attacks, the fake media must be accompanied by false facts i.e. claims about the identity, speech, motion, or appearance of the person. For instance, when impersonating Obama, the attacker explicitly or implicitly claims that the fake media show Obama; ii) current generative techniques cannot perfectly synthesize the false facts claimed by the attacker. We therefore introduce the concept of "fact checking", adapted from fake news detection, for detecting zero-day deepfake attacks. Fact checking verifies that the claimed facts (e.g. Consequently, we introduce FACTOR, a practical recipe for deepfake fact checking and demonstrate its power in critical attack settings: face swapping and audio-visual synthesis. Although it is trainingfree, relies exclusively on off-the-shelf features, is very easy to implement, and does not see any deepfakes, it achieves better than state-of-the-art accuracy. Our code is available at https://github.com/talreiss/FACTOR. The ability to disseminate large-scale disinformation to undermine scientifically established facts poses an existential risk to humanity and endangers democratic institutions and fundamental human rights. Deepfakes have been universally acknowledged to pose a grave threat to society. Bad actors can use fake information for various malicious purposes, including disinformation, societal polarization, embarrassment, and privacy violations.

Diffusion models have been recently used for anomaly detection (AD) in images. In this paper we investigate whether they can also be leveraged for AD on multivariate time series (MTS). We test two diffusion-based models and compare them to several strong neural baselines. We also extend the PA%K protocol, by computing a ROCK-AUC metric, which is agnostic to both the detection threshold and the ratio K of correctly detected points. Our models outperform the baselines on synthetic datasets and are competitive on real-world datasets, illustrating the potential of diffusion-based methods for AD in multivariate time series.

We propose a learning problem involving adapting a pre-trained source model to the target domain for classifying all classes that appeared in the source data, using target data that covers only a partial label space. This problem is practical, as it is unrealistic for the target end-users to collect data for all classes prior to adaptation. However, it has received limited attention in the literature. To shed light on this issue, we construct benchmark datasets and conduct extensive experiments to uncover the inherent challenges. We found a dilemma -- on the one hand, adapting to the new target domain is important to claim better performance; on the other hand, we observe that preserving the classification accuracy of classes missing in the target adaptation data is highly challenging, let alone improving them. To tackle this, we identify two key directions: 1) disentangling domain gradients from classification gradients, and 2) preserving class relationships. We present several effective solutions that maintain the accuracy of the missing classes and enhance the overall performance, establishing solid baselines for holistic transfer of pre-trained models with partial target data.

The emergence of pandemics has significantly emphasized the need for effective solutions in healthcare data analysis. One particular challenge in this domain is the manual examination of medical images, such as X-rays and CT scans. This process is time-consuming and involves the logistical complexities of transferring these images to centralized cloud computing servers. Additionally, the speed and accuracy of image analysis are vital for efficient healthcare image management. This research paper introduces an innovative healthcare architecture that tackles the challenges of analysis efficiency and accuracy by harnessing the capabilities of Artificial Intelligence (AI). Specifically, the proposed architecture utilizes fog computing and presents a modified Convolutional Neural Network (CNN) designed specifically for image analysis. Different architectures of CNN layers are thoroughly explored and evaluated to optimize overall performance. To demonstrate the effectiveness of the proposed approach, a dataset of X-ray images is utilized for analysis and evaluation. Comparative assessments are conducted against recent models such as VGG16, VGG19, MobileNet, and related research papers. Notably, the proposed approach achieves an exceptional accuracy rate of 99.88% in classifying normal cases, accompanied by a validation rate of 96.5%, precision and recall rates of 100%, and an F1 score of 100%. These results highlight the immense potential of fog computing and modified CNNs in revolutionizing healthcare image analysis and diagnosis, not only during pandemics but also in the future. By leveraging these technologies, healthcare professionals can enhance the efficiency and accuracy of medical image analysis, leading to improved patient care and outcomes.