Vulnerable road users (VRUs), such as pedestrians and bicyclists, are at a higher risk of being involved in crashes with motor vehicles, and crashes involving VRUs also are more likely to result in severe injuries or fatalities. Signalized intersections are a major safety concern for VRUs due to their complex and dynamic nature, highlighting the need to understand how these road users interact with motor vehicles and deploy evidence-based countermeasures to improve safety performance. Crashes involving VRUs are relatively infrequent, making it difficult to understand the underlying contributing factors. An alternative is to identify and use conflicts between VRUs and motorized vehicles as a surrogate for safety performance. Automatically detecting these conflicts using a video-based systems is a crucial step in developing smart infrastructure to enhance VRU safety. The Pennsylvania Department of Transportation conducted a study using video-based event monitoring system to assess VRU and motor vehicle interactions at fifteen signalized intersections across Pennsylvania to improve VRU safety performance. This research builds on that study to assess the reliability of automatically generated surrogates in predicting confirmed conflicts using advanced data-driven models. The surrogate data used for analysis include automatically collectable variables such as vehicular and VRU speeds, movements, post-encroachment time, in addition to manually collected variables like signal states, lighting, and weather conditions. The findings highlight the varying importance of specific surrogates in predicting true conflicts, some being more informative than others. The findings can assist transportation agencies to collect the right types of data to help prioritize infrastructure investments, such as bike lanes and crosswalks, and evaluate their effectiveness.

One of the hallmark symptoms of Parkinson's Disease (PD) is the progressive loss of postural reflexes, which eventually leads to gait difficulties and balance problems. Identifying disruptions in brain function associated with gait impairment could be crucial in better understanding PD motor progression, thus advancing the development of more effective and personalized therapeutics. In this work, we present an explainable, geometric, weighted-graph attention neural network (xGW-GAT) to identify functional networks predictive of the progression of gait difficulties in individuals with PD. xGW-GAT predicts the multi-class gait impairment on the MDS Unified PD Rating Scale (MDS-UPDRS). Our computational- and data-efficient model represents functional connectomes as symmetric positive definite (SPD) matrices on a Riemannian manifold to explicitly encode pairwise interactions of entire connectomes, based on which we learn an attention mask yielding individual- and group-level explainability. Applied to our resting-state functional MRI (rs-fMRI) dataset of individuals with PD, xGW-GAT identifies functional connectivity patterns associated with gait impairment in PD and offers interpretable explanations of functional subnetworks associated with motor impairment. Our model successfully outperforms several existing methods while simultaneously revealing clinically-relevant connectivity patterns. The source code is available at https://github.com/favour-nerrise/xGW-GAT .

Polygenic risk scores (PRS) estimate the genetic risk of an individual for a complex disease based on many genetic variants across the whole genome. In this study, we compared a series of computational models for estimation of breast cancer PRS. A deep neural network (DNN) was found to outperform alternative machine learning techniques and established statistical algorithms, including BLUP, BayesA and LDpred. In the test cohort with 50% prevalence, the Area Under the receiver operating characteristic Curve (AUC) were 67.4% for DNN, 64.2% for BLUP, 64.5% for BayesA, and 62.4% for LDpred. BLUP, BayesA, and LPpred all generated PRS that followed a normal distribution in the case population. However, the PRS generated by DNN in the case population followed a bi-modal distribution composed of two normal distributions with distinctly different means. This suggests that DNN was able to separate the case population into a high-genetic-risk case sub-population with an average PRS significantly higher than the control population and a normal-genetic-risk case sub-population with an average PRS similar to the control population. This allowed DNN to achieve 18.8% recall at 90% precision in the test cohort with 50% prevalence, which can be extrapolated to 65.4% recall at 20% precision in a general population with 12% prevalence. Interpretation of the DNN model identified salient variants that were assigned insignificant p-values by association studies, but were important for DNN prediction. These variants may be associated with the phenotype through non-linear relationships.

Desulfovibrio alaskensis G20 (DA-G20) is utilized as a model for sulfate-reducing bacteria (SRB) that are associated with corrosion issues caused by microorganisms. SRB-based biofilms are thought to be responsible for the billion-dollar-per-year bio-corrosion of metal infrastructure. Understanding the extraction of the bacterial cells' shape and size properties in the SRB-biofilm at different growth stages will assist with the design of anti-corrosion techniques. However, numerous issues affect current approaches, including time-consuming geometric property extraction, low efficiency, and high error rates. This paper proposes BiofilScanner, a Yolact-based deep learning method integrated with invariant moments to address these problems. Our approach efficiently detects and segments bacterial cells in an SRB image while simultaneously invariant moments measure the geometric characteristics of the segmented cells with low errors. The numerical experiments of the proposed method demonstrate that the BiofilmScanner is 2.1x and 6.8x faster than our earlier Mask-RCNN and DLv3+ methods for detecting, segmenting, and measuring the geometric properties of the cell. Furthermore, the BiofilmScanner achieved an F1-score of 85.28% while Mask-RCNN and DLv3+ obtained F1-scores of 77.67% and 75.18%, respectively.

Real-world classifiers can benefit from the option of abstaining from predicting on samples where they have low confidence. Such abstention is particularly useful on samples which are close to the learned decision boundary, or which are outliers with respect to the training sample. These settings have been the subject of extensive but disjoint study in the selective classification (SC) and out-of-distribution (OOD) detection literature. Recent work on selective classification with OOD detection (SCOD) has argued for the unified study of these problems; however, the formal underpinnings of this problem are still nascent, and existing techniques are heuristic in nature. In this paper, we propose new plugin estimators for SCOD that are theoretically grounded, effective, and generalise existing approaches from the SC and OOD detection literature. In the course of our analysis, we formally explicate how na\"{i}ve use of existing SC and OOD detection baselines may be inadequate for SCOD. We empirically demonstrate that our approaches yields competitive SC and OOD detection performance compared to baselines from both literatures.

Numerous examples in the literature proved that deep learning models have the ability to work well with multimodal data. Recently, CLIP has enabled deep learning systems to learn shared latent spaces between images and text descriptions, with outstanding zero- or few-shot results in downstream tasks. In this paper we explore the same idea proposed by CLIP but applied to the speech domain, where the phonetic and acoustic spaces usually coexist. We train a CLIP-based model with the aim to learn shared representations of phonetic and acoustic spaces. The results show that the proposed model is sensible to phonetic changes, with a 91% of score drops when replacing 20% of the phonemes at random, while providing substantial robustness against different kinds of noise, with a 10% performance drop when mixing the audio with 75% of Gaussian noise. We also provide empirical evidence showing that the resulting embeddings are useful for a variety of downstream applications, such as intelligibility evaluation and the ability to leverage rich pre-trained phonetic embeddings in speech generation task. Finally, we discuss potential applications with interesting implications for the speech generation and recognition fields.

Early prediction of Alzheimer's disease (AD) is crucial for timely intervention and treatment. This study aims to use machine learning approaches to analyze longitudinal electronic health records (EHRs) of patients with AD and identify signs and symptoms that can predict AD onset earlier. We used a case-control design with longitudinal EHRs from the U.S. Department of Veterans Affairs Veterans Health Administration (VHA) from 2004 to 2021. Cases were VHA patients with AD diagnosed after 1/1/2016 based on ICD-10-CM codes, matched 1:9 with controls by age, sex and clinical utilization with replacement. We used a panel of AD-related keywords and their occurrences over time in a patient's longitudinal EHRs as predictors for AD prediction with four machine learning models. We performed subgroup analyses by age, sex, and race/ethnicity, and validated the model in a hold-out and "unseen" VHA stations group. Model discrimination, calibration, and other relevant metrics were reported for predictions up to ten years before ICD-based diagnosis. The study population included 16,701 cases and 39,097 matched controls. The average number of AD-related keywords (e.g., "concentration", "speaking") per year increased rapidly for cases as diagnosis approached, from around 10 to over 40, while remaining flat at 10 for controls. The best model achieved high discriminative accuracy (ROCAUC 0.997) for predictions using data from at least ten years before ICD-based diagnoses. The model was well-calibrated (Hosmer-Lemeshow goodness-of-fit p-value = 0.99) and consistent across subgroups of age, sex and race/ethnicity, except for patients younger than 65 (ROCAUC 0.746). Machine learning models using AD-related keywords identified from EHR notes can predict future AD diagnoses, suggesting its potential use for identifying AD risk using EHR notes, offering an affordable way for early screening on large population.

The system log generated in a computer system refers to large-scale data that are collected simultaneously and used as the basic data for determining errors, intrusion and abnormal behaviors. The aim of system log anomaly detection is to promptly identify anomalies while minimizing human intervention, which is a critical problem in the industry. Previous studies performed anomaly detection through algorithms after converting various forms of log data into a standardized template using a parser. Particularly, a template corresponding to a specific event should be defined in advance for all the log data using which the information within the log key may get lost. In this study, we propose LAnoBERT, a parser free system log anomaly detection method that uses the BERT model, exhibiting excellent natural language processing performance. The proposed method, LAnoBERT, learns the model through masked language modeling, which is a BERT-based pre-training method, and proceeds with unsupervised learning-based anomaly detection using the masked language modeling loss function per log key during the test process. In addition, we also propose an efficient inference process to establish a practically applicable pipeline to the actual system. Experiments on three well-known log datasets, i.e., HDFS, BGL, and Thunderbird, show that not only did LAnoBERT yield a higher anomaly detection performance compared to unsupervised learning-based benchmark models, but also it resulted in a comparable performance with supervised learning-based benchmark models.

Entity Resolution (ER) is the problem of determining when two entities refer to the same underlying entity. The problem has been studied for over 50 years, and most recently, has taken on new importance in an era of large, heterogeneous 'knowledge graphs' published on the Web and used widely in domains as wide ranging as social media, e-commerce and search. This chapter will discuss the specific problem of named ER in the context of personal knowledge graphs (PKGs). We begin with a formal definition of the problem, and the components necessary for doing high-quality and efficient ER. We also discuss some challenges that are expected to arise for Web-scale data. Next, we provide a brief literature review, with a special focus on how existing techniques can potentially apply to PKGs. We conclude the chapter by covering some applications, as well as promising directions for future research.

Object pose estimation is a core perception task that enables, for example, object grasping and scene understanding. The widely available, inexpensive and high-resolution RGB sensors and CNNs that allow for fast inference based on this modality make monocular approaches especially well suited for robotics applications. We observe that previous surveys on object pose estimation establish the state of the art for varying modalities, single- and multi-view settings, and datasets and metrics that consider a multitude of applications. We argue, however, that those works' broad scope hinders the identification of open challenges that are specific to monocular approaches and the derivation of promising future challenges for their application in robotics. By providing a unified view on recent publications from both robotics and computer vision, we find that occlusion handling, novel pose representations, and formalizing and improving category-level pose estimation are still fundamental challenges that are highly relevant for robotics. Moreover, to further improve robotic performance, large object sets, novel objects, refractive materials, and uncertainty estimates are central, largely unsolved open challenges. In order to address them, ontological reasoning, deformability handling, scene-level reasoning, realistic datasets, and the ecological footprint of algorithms need to be improved.