Performance Analysis
Dataset Optimization for Chronic Disease Prediction with Bio-Inspired Feature Selection
In this study, we investigated the application of bio-inspired optimization algorithms, including Genetic Algorithm, Particle Swarm Optimization, and Whale Optimization Algorithm, for feature selection in chronic disease prediction. The primary goal was to enhance the predictive accuracy of models streamline data dimensionality, and make predictions more interpretable and actionable. The research encompassed a comparative analysis of the three bio-inspired feature selection approaches across diverse chronic diseases, including diabetes, cancer, kidney, and cardiovascular diseases. Performance metrics such as accuracy, precision, recall, and f1 score are used to assess the effectiveness of the algorithms in reducing the number of features needed for accurate classification. The results in general demonstrate that the bio-inspired optimization algorithms are effective in reducing the number of features required for accurate classification. However, there have been variations in the performance of the algorithms on different datasets. The study highlights the importance of data pre-processing and cleaning in ensuring the reliability and effectiveness of the analysis. This study contributes to the advancement of predictive analytics in the realm of chronic diseases. The potential impact of this work extends to early intervention, precision medicine, and improved patient outcomes, providing new avenues for the delivery of healthcare services tailored to individual needs. The findings underscore the potential benefits of using bio-inspired optimization algorithms for feature selection in chronic disease prediction, offering valuable insights for improving healthcare outcomes.
Android Malware Detection with Unbiased Confidence Guarantees
Papadopoulos, Harris, Georgiou, Nestoras, Eliades, Charalambos, Konstantinidis, Andreas
The impressive growth of smartphone devices in combination with the rising ubiquity of using mobile platforms for sensitive applications such as Internet banking, have triggered a rapid increase in mobile malware. In recent literature, many studies examine Machine Learning techniques, as the most promising approach for mobile malware detection, without however quantifying the uncertainty involved in their detections. In this paper, we address this problem by proposing a machine learning dynamic analysis approach that provides provably valid confidence guarantees in each malware detection. Moreover the particular guarantees hold for both the malicious and benign classes independently and are unaffected by any bias in the data. The proposed approach is based on a novel machine learning framework, called Conformal Prediction, combined with a random forests classifier. We examine its performance on a large-scale dataset collected by installing 1866 malicious and 4816 benign applications on a real android device. We make this collection of dynamic analysis data available to the research community. The obtained experimental results demonstrate the empirical validity, usefulness and unbiased nature of the outputs produced by the proposed approach.
Variable Importance in High-Dimensional Settings Requires Grouping
Chamma, Ahmad, Thirion, Bertrand, Engemann, Denis A.
Explaining the decision process of machine learning algorithms is nowadays crucial for both model's performance enhancement and human comprehension. This can be achieved by assessing the variable importance of single variables, even for high-capacity non-linear methods, e.g. Deep Neural Networks (DNNs). While only removal-based approaches, such as Permutation Importance (PI), can bring statistical validity, they return misleading results when variables are correlated. Conditional Permutation Importance (CPI) bypasses PI's limitations in such cases. However, in high-dimensional settings, where high correlations between the variables cancel their conditional importance, the use of CPI as well as other methods leads to unreliable results, besides prohibitive computation costs. Grouping variables statistically via clustering or some prior knowledge gains some power back and leads to better interpretations. In this work, we introduce BCPI (Block-Based Conditional Permutation Importance), a new generic framework for variable importance computation with statistical guarantees handling both single and group cases. Furthermore, as handling groups with high cardinality (such as a set of observations of a given modality) are both time-consuming and resource-intensive, we also introduce a new stacking approach extending the DNN architecture with sub-linear layers adapted to the group structure. We show that the ensuing approach extended with stacking controls the type-I error even with highly-correlated groups and shows top accuracy across benchmarks. Furthermore, we perform a real-world data analysis in a large-scale medical dataset where we aim to show the consistency between our results and the literature for a biomarker prediction.
The unreasonable effectiveness of AI CADe polyp detectors to generalize to new countries
Shor, Joel, Yamano, Hiro-o, Tsurumaru, Daisuke, Intrator, Yotami, Kayama, Hiroki, Ledsam, Joe, Hamabe, Atsushi, Ando, Koji, Ota, Mitsuhiko, Ogino, Haruei, Nakase, Hiroshi, Kobayashi, Kaho, Oki, Eiji, Goldenberg, Roman, Rivlin, Ehud, Takemasa, Ichiro
$\textbf{Background and aims}$: Artificial Intelligence (AI) Computer-Aided Detection (CADe) is commonly used for polyp detection, but data seen in clinical settings can differ from model training. Few studies evaluate how well CADe detectors perform on colonoscopies from countries not seen during training, and none are able to evaluate performance without collecting expensive and time-intensive labels. $\textbf{Methods}$: We trained a CADe polyp detector on Israeli colonoscopy videos (5004 videos, 1106 hours) and evaluated on Japanese videos (354 videos, 128 hours) by measuring the True Positive Rate (TPR) versus false alarms per minute (FAPM). We introduce a colonoscopy dissimilarity measure called "MAsked mediCal Embedding Distance" (MACE) to quantify differences between colonoscopies, without labels. We evaluated CADe on all Japan videos and on those with the highest MACE. $\textbf{Results}$: MACE correctly quantifies that narrow-band imaging (NBI) and chromoendoscopy (CE) frames are less similar to Israel data than Japan whitelight (bootstrapped z-test, |z| > 690, p < $10^{-8}$ for both). Despite differences in the data, CADe performance on Japan colonoscopies was non-inferior to Israel ones without additional training (TPR at 0.5 FAPM: 0.957 and 0.972 for Israel and Japan; TPR at 1.0 FAPM: 0.972 and 0.989 for Israel and Japan; superiority test t > 45.2, p < $10^{-8}$). Despite not being trained on NBI or CE, TPR on those subsets were non-inferior to Japan overall (non-inferiority test t > 47.3, p < $10^{-8}$, $\delta$ = 1.5% for both). $\textbf{Conclusion}$: Differences that prevent CADe detectors from performing well in non-medical settings do not degrade the performance of our AI CADe polyp detector when applied to data from a new country. MACE can help medical AI models internationalize by identifying the most "dissimilar" data on which to evaluate models.
GLOBE-CE: A Translation-Based Approach for Global Counterfactual Explanations
Ley, Dan, Mishra, Saumitra, Magazzeni, Daniele
Counterfactual explanations have been widely studied in explainability, with a range of application dependent methods prominent in fairness, recourse and model understanding. The major shortcoming associated with these methods, however, is their inability to provide explanations beyond the local or instance-level. While many works touch upon the notion of a global explanation, typically suggesting to aggregate masses of local explanations in the hope of ascertaining global properties, few provide frameworks that are both reliable and computationally tractable. Meanwhile, practitioners are requesting more efficient and interactive explainability tools. We take this opportunity to propose Global & Efficient Counterfactual Explanations (GLOBE-CE), a flexible framework that tackles the reliability and scalability issues associated with current state-of-the-art, particularly on higher dimensional datasets and in the presence of continuous features. Furthermore, we provide a unique mathematical analysis of categorical feature translations, utilising it in our method. Experimental evaluation with publicly available datasets and user studies demonstrate that GLOBE-CE performs significantly better than the current state-of-the-art across multiple metrics (e.g., speed, reliability).
A novel multi-layer modular approach for real-time fuzzy-identification of gravitational-wave signals
Barone, Francesco Pio, Dell'Aquila, Daniele, Russo, Marco
Advanced LIGO and Advanced Virgo ground-based interferometers are instruments capable to detect gravitational wave signals exploiting advanced laser interferometry techniques. The underlying data analysis task consists in identifying specific patterns in noisy timeseries, but it is made extremely complex by the incredibly small amplitude of the target signals. In this scenario, the development of effective gravitational wave detection algorithms is crucial. We propose a novel layered framework for real-time detection of gravitational waves inspired by speech processing techniques and, in the present implementation, based on a state-of-the-art machine learning approach involving a hybridization of genetic programming and neural networks. The key aspects of the newly proposed framework are: the well structured, layered approach, and the low computational complexity. The paper describes the basic concepts of the framework and the derivation of the first three layers. Even if the layers are based on models derived using a machine learning approach, the proposed layered structure has a universal nature. Compared to more complex approaches, such as convolutional neural networks, which comprise a parameter set of several tens of MB and were tested exclusively for fixed length data samples, our framework has lower accuracy (e.g., it identifies 45% of low signal-to-noise-ration gravitational wave signals, against 65% of the state-of-the-art, at a false alarm probability of $10^{-2}$), but has a much lower computational complexity and a higher degree of modularity. Furthermore, the exploitation of short-term features makes the results of the new framework virtually independent against time-position of gravitational wave signals, simplifying its future exploitation in real-time multi-layer pipelines for gravitational-wave detection with new generation interferometers.
Prediction of Crash Injury Severity in Florida's Interstate-95
Anik, B M Tazbiul Hassan, Rashid, Md Mobasshir, Ahsan, Md Jamil
Drivers can sustain serious injuries in traffic accidents. In this study, traffic crashes on Florida's Interstate-95 from 2016 to 2021 were gathered, and several classification methods were used to estimate the severity of driver injuries. In the feature selection method, logistic regression was applied. To compare model performances, various model assessment matrices such as accuracy, recall, and area under curve (AUC) were developed. The Adaboost algorithm outperformed the others in terms of recall and AUC. SHAP values were also generated to explain the classification model's results. This analytical study can be used to examine factors that contribute to the severity of driver injuries in crashes.
Fusion of Deep and Shallow Features for Face Kinship Verification
Ouanas, Belabbaci El, Mohammed, Khammari, Ammar, Chouchane, Bessaoudi, Mohcene, Ouamane, Abdelmalik, Gharbi, Akram Abderraouf
Retinex (MSR), which enhances image quality. MSIDA typically performs the projection of the input region tensor into a novel multilinear The objective of kinship verification from face images is to subspace, which results in an increased distance between ascertain the biological relationship between two individuals samples belonging to different classes and a decreased distance by analyzing their faces appearances [1].
Best practices for machine learning in antibody discovery and development
Wossnig, Leonard, Furtmann, Norbert, Buchanan, Andrew, Kumar, Sandeep, Greiff, Victor
Over the past 40 years, the discovery and development of therapeutic antibodies to treat disease has become common practice. However, as therapeutic antibody constructs are becoming more sophisticated (e.g., multi-specifics), conventional approaches to optimisation are increasingly inefficient. Machine learning (ML) promises to open up an in silico route to antibody discovery and help accelerate the development of drug products using a reduced number of experiments and hence cost. Over the past few years, we have observed rapid developments in the field of ML-guided antibody discovery and development (D&D). However, many of the results are difficult to compare or hard to assess for utility by other experts in the field due to the high diversity in the datasets and evaluation techniques and metrics that are across industry and academia. This limitation of the literature curtails the broad adoption of ML across the industry and slows down overall progress in the field, highlighting the need to develop standards and guidelines that may help improve the reproducibility of ML models across different research groups. To address these challenges, we set out in this perspective to critically review current practices, explain common pitfalls, and clearly define a set of method development and evaluation guidelines that can be applied to different types of ML-based techniques for therapeutic antibody D&D. Specifically, we address in an end-to-end analysis, challenges associated with all aspects of the ML process and recommend a set of best practices for each stage.
Towards Reliable Dermatology Evaluation Benchmarks
Gröger, Fabian, Lionetti, Simone, Gottfrois, Philippe, Gonzalez-Jimenez, Alvaro, Groh, Matthew, Daneshjou, Roxana, Consortium, Labelling, Navarini, Alexander A., Pouly, Marc
Benchmark datasets for digital dermatology unwittingly contain inaccuracies that reduce trust in model performance estimates. We propose a resource-efficient data-cleaning protocol to identify issues that escaped previous curation. The protocol leverages an existing algorithmic cleaning strategy and is followed by a confirmation process terminated by an intuitive stopping criterion. Based on confirmation by multiple dermatologists, we remove irrelevant samples and near duplicates and estimate the percentage of label errors in six dermatology image datasets for model evaluation promoted by the International Skin Imaging Collaboration. Along with this paper, we publish revised file lists for each dataset which should be used for model evaluation. Our work paves the way for more trustworthy performance assessment in digital dermatology.