Proper regulation of gene expression is essential to ensure that genes are activated only when necessary and that their activity is properly controlled [3]. The regulation of gene expression is achieved through understanding the intricate interactions between genes and other molecules. In this effort, Gene Regulatory Networks have emerged as a strong tool[2]. Gene regulatory networks (GRNs) are complex systems that determine the development, differentiation, and function of cells and organisms, as well as their response to environmental stimuli [4][5]. GRNs consist of genes, transcription factors (TFs), microRNAs, and other regulatory molecules that interact with each other to control gene expression [6]. The regulatory interactions between these molecules can form complex networks that exhibit emergent properties, such as robustness and adaptability [7]. In its simplest form, a GRN is a network of genes and their regulatory interactions, which govern the expression of these genes in response to various cellular cues. It is worth noting that in this definition, a transcription factor (TF) is considered a special kind of gene that may regulate the expression of other non-TF or TF genes. Each gene in the network acts as a node, and the regulatory interactions between genes are represented by directed edges connecting these nodes[8].

Bovine Viral Diarrhoea (BVD) has been the focus of a successful eradication programme in Ireland, with the herd-level prevalence declining from 11.3% in 2013 to just 0.2% in 2023. As the country moves toward BVD freedom, the development of predictive models for targeted surveillance becomes increasingly important to mitigate the risk of disease re-emergence. In this study, we evaluate the performance of a range of machine learning algorithms, including binary classification and anomaly detection techniques, for predicting BVD-positive herds using highly imbalanced herd-level data. We conduct an extensive simulation study to assess model performance across varying sample sizes and class imbalance ratios, incorporating resampling, class weighting, and appropriate evaluation metrics (sensitivity, positive predictive value, F1-score and AUC values). Random forests and XGBoost models consistently outperformed other methods, with the random forest model achieving the highest sensitivity and AUC across scenarios, including real-world prediction of 2023 herd status, correctly identifying 219 of 250 positive herds while halving the number of herds that require compared to a blanket-testing strategy.

A robot navigating an outdoor environment with no prior knowledge of the space must rely on its local sensing to perceive its surroundings and plan. This can come in the form of a local metric map or local policy with some fixed horizon. Beyond that, there is a fog of unknown space marked with some fixed cost. A limited planning horizon can often result in myopic decisions leading the robot off course or worse, into very difficult terrain. Ideally, we would like the robot to have full knowledge that can be orders of magnitude larger than a local cost map. In practice, this is intractable due to sparse sensing information and often computationally expensive. In this work, we make a key observation that long-range navigation only necessitates identifying good frontier directions for planning instead of full map knowledge. To this end, we propose Long Range Navigator (LRN), that learns an intermediate affordance representation mapping high-dimensional camera images to `affordable' frontiers for planning, and then optimizing for maximum alignment with the desired goal. LRN notably is trained entirely on unlabeled ego-centric videos making it easy to scale and adapt to new platforms. Through extensive off-road experiments on Spot and a Big Vehicle, we find that augmenting existing navigation stacks with LRN reduces human interventions at test-time and leads to faster decision making indicating the relevance of LRN. https://personalrobotics.github.io/lrn

This study explores the potential of using wrist-worn inertial sensors to automate the labeling of ARAT (Action Research Arm Test) items. While the ARAT is commonly used to assess upper limb motor function, its limitations include subjectivity and time consumption of clinical staff. By using IMU (Inertial Measurement Unit) sensors and MiniROCKET as a time series classification technique, this investigation aims to classify ARAT items based on sensor recordings. We test common preprocessing strategies to efficiently leverage included information in the data. Afterward, we use the best preprocessing to improve the classification. The dataset includes recordings of 45 participants performing various ARAT items. Results show that MiniROCKET offers a fast and reliable approach for classifying ARAT domains, although challenges remain in distinguishing between individual resembling items. Future work may involve improving classification through more advanced machine-learning models and data enhancements.

Feature selection is essential for efficient data mining and sometimes encounters the positive-unlabeled (PU) learning scenario, where only a few positive labels are available, while most data remains unlabeled. In certain real-world PU learning tasks, data subjected to adequate feature selection often form clusters with concentrated positive labels. Conventional feature selection methods that treat unlabeled data as negative may fail to capture the statistical characteristics of positive data in such scenarios, leading to suboptimal performance. To address this, we propose a novel feature selection method based on the cluster assumption in PU learning, called FSCPU. FSCPU formulates the feature selection problem as a binary optimization task, with an objective function explicitly designed to incorporate the cluster assumption in the PU learning setting. Experiments on synthetic datasets demonstrate the effectiveness of FSCPU across various data conditions. Moreover, comparisons with 10 conventional algorithms on three open datasets show that FSCPU achieves competitive performance in downstream classification tasks, even when the cluster assumption does not strictly hold.

Discrimination-aware classification aims to make accurate predictions while satisfying fairness constraints. Traditional decision tree learners typically optimize for information gain in the target attribute alone, which can result in models that unfairly discriminate against protected social groups (e.g., gender, ethnicity). Motivated by these shortcomings, we propose GroupCART, a tree-based ensemble optimizer that avoids bias during model construction by optimizing not only for decreased entropy in the target attribute but also for increased entropy in protected attributes. Our experiments show that GroupCART achieves fairer models without data transformation and with minimal performance degradation. Furthermore, the method supports customizable weighting, offering a smooth and flexible trade-off between predictive performance and fairness based on user requirements. These results demonstrate that algorithmic bias in decision tree models can be mitigated through multi-task, fairness-aware learning. All code and datasets used in this study are available at: https://github.com/anonymous12138/groupCART.

In recent years, fairness in machine learning has emerged as a critical concern to ensure that developed and deployed predictive models do not have disadvantageous predictions for marginalized groups. It is essential to mitigate discrimination against individuals based on protected attributes such as gender and race. In this work, we consider applying subgroup justice concepts to gradient-boosting machines designed for supervised learning problems. Our approach expanded gradient-boosting methodologies to explore a broader range of objective functions, which combines conventional losses such as the ones from classification and regression and a min-max fairness term. We study relevant theoretical properties of the solution of the min-max optimization problem. The optimization process explored the primal-dual problems at each boosting round. This generic framework can be adapted to diverse fairness concepts. The proposed min-max primal-dual gradient boosting algorithm was theoretically shown to converge under mild conditions and empirically shown to be a powerful and flexible approach to address binary and subgroup fairness.

The evaluation of open-ended responses in serious games presents a unique challenge, as correctness is often subjective. Large Language Models (LLMs) are increasingly being explored as evaluators in such contexts, yet their accuracy and consistency remain uncertain, particularly for smaller models intended for local execution. This study investigates the reliability of five small-scale LLMs when assessing player responses in \textit{En-join}, a game that simulates decision-making within energy communities. By leveraging traditional binary classification metrics (including accuracy, true positive rate, and true negative rate), we systematically compare these models across different evaluation scenarios. Our results highlight the strengths and limitations of each model, revealing trade-offs between sensitivity, specificity, and overall performance. We demonstrate that while some models excel at identifying correct responses, others struggle with false positives or inconsistent evaluations. The findings highlight the need for context-aware evaluation frameworks and careful model selection when deploying LLMs as evaluators. This work contributes to the broader discourse on the trustworthiness of AI-driven assessment tools, offering insights into how different LLM architectures handle subjective evaluation tasks.

Hornbills, an iconic species of Malaysia's biodiversity, face threats from habitat loss, poaching, and environmental changes, necessitating accurate and real - time population monitoring that is traditionally challenging and resource intensive. The emergence of Tiny Machine Learning (TinyML) offers a chance to transform wildlife monitoring by enabling efficient, real - time data analysis directly on edge devices. Addressing the challenge of wildlife conservation, this research paper explores the pivotal role of machine learning, specifically TinyML, in the classification and monitoring of hornbill calls in Malaysia. Leveraging audio data from the Xeno - canto database, the study aims to develop a speech recognition system capable of identifying and classifying hornbill vocalizations. The proposed methodology involves preprocessing the audio data, extracting features using Mel - Frequency Energy (MFE), and deploying the model on an Arduino Nano 33 BLE, which is adept at edge computing. The research encompasses foundational work, including a comprehensive introduction, literature review, and methodology. The model is trained using Edge Impulse and validated through real - world tests, achieving high accuracy in hornbill species identification. The project underscores the potential of TinyML for environmental monitoring and its broader application in ecological conservation efforts, contributing to both the field of TinyML and wildlife conservation.

Achieving reliable and safe autonomous driving in off-road environments requires accurate and efficient terrain traversability analysis. However, this task faces several challenges, including the scarcity of large-scale datasets tailored for off-road scenarios, the high cost and potential errors of manual annotation, the stringent real-time requirements of motion planning, and the limited computational power of onboard units. To address these challenges, this paper proposes a novel traversability learning method that leverages self-supervised learning, eliminating the need for manual annotation. For the first time, a Birds-Eye View (BEV) representation is used as input, reducing computational burden and improving adaptability to downstream motion planning. During vehicle operation, the proposed method conducts online analysis of traversed regions and dynamically updates prototypes to adaptively assess the traversability of the current environment, effectively handling dynamic scene changes. We evaluate our approach against state-of-the-art benchmarks on both public datasets and our own dataset, covering diverse seasons and geographical locations. Experimental results demonstrate that our method significantly outperforms recent approaches. Additionally, real-world vehicle experiments show that our method operates at 10 Hz, meeting real-time requirements, while a 5.5 km autonomous driving experiment further validates the generated traversability cost maps compatibility with downstream motion planning.