Artificial Intelligence in Medicine (Canada)

Although the problem of determining the minimum cost path through a graph arises naturally in a number of interesting applications, there has been no underlying theory to guide the development of efficient search procedures. Moreover, there is no adequate conceptual framework within which the various ad hoc search strategies proposed to date can be compared. This paper describes how heuristic information from the problem domain can be incorporated into a formal mathematical theory of graph searching and demonstrates an optimality property of a class of search strategies.

A theory of edge detection is presented. The analysis proceeds in two parts. (1) Intensity changes, which occur in a natural image over a wide range of scales, are detected separately at different scales. An appropriate filter for this purpose at a given scale is found to be the second derivative of a Gaussian, and it is shown that, provided some simple conditions are satisfied, these primary filters need not be orientation-dependent. Thus, intensity changes at a given scale are best detected by finding the zero values of delta 2G(x,y)*I(x,y) for image I, where G(x,y) is a two-dimensional Gaussian distribution and delta 2 is the Laplacian. The intensity changes thus discovered in each of the channels are then represented by oriented primitives called zero-crossing segments, and evidence is given that this representation is complete. (2) Intensity changes in images arise from surface discontinuities or from reflectance or illumination boundaries, and these all have the property that they are spatially. Because of this, the zero-crossing segments from the different channels are not independent, and rules are deduced for combining them into a description of the image. This description is called the raw primal sketch. The theory explains several basic psychophysical findings, and the operation of forming oriented zero-crossing segments from the output of centre-surround delta 2G filters acting on the image forms the basis for a physiological model of simple cells (see Marr & Ullman 1979).

A novel infectious disease, caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), was detected in Wuhan, China, in December 2019.The disease (COVID-19) spread rapidly, reaching epidemic proportions in China, and has been found in 27 other countries.As of February 27, 2020, over 82,000 cases of COVID-19 were reported, with > 2800 deaths.No specific therapeutics are available, and current management includes travel restrictions, patient isolation, and supportive medical care.There are a number of pharmaceuticals already being tested [1, 2], but a better understanding of the underlying pathobiology is required.In this context, this article will briefly review the rationale for angiotensin-converting enzyme 2 (ACE2) receptor as a specific target.

Coronavirus (COVID-19) is a viral disease caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). The spread of COVID-19 seems to have a detrimental effect on the global economy and health. A positive chest X-ray of infected patients is a crucial step in the battle against COVID-19. Early results suggest that abnormalities exist in chest X-rays of patients suggestive of COVID-19. This has led to the introduction of a variety of deep learning systems and studies have shown that the accuracy of COVID-19 patient detection through the use of chest X-rays is strongly optimistic. Deep learning networks like convolutional neural networks (CNNs) need a substantial amount of training data. Because the outbreak is recent, it is difficult to gather a significant number of radiographic images in such a short time. Therefore, in this research, we present a method to generate synthetic chest X-ray (CXR) images by developing an Auxiliary Classifier Generative Adversarial Network (ACGAN) based model called CovidGAN. In addition, we demonstrate that the synthetic images produced from CovidGAN can be utilized to enhance the performance of CNN for COVID-19 detection. Classification using CNN alone yielded 85% accuracy. By adding synthetic images produced by CovidGAN,the accuracy increased to 95%. We hope this method will speed up COVID-19 detection and lead to more robust systems of radiology.

Increases in throughput and installed base of biomedical research equipment led to a massive accumulation of -omics data known to be highly variable, high-dimensional, and sourced from multiple often incompatible data platforms. While this data may be useful for biomarker identification and drug discovery, the bulk of it remains underutilized. Deep neural networks (DNNs) are efficient algorithms based on the use of compositional layers of neurons, with advantages well matched to the challenges -omics data presents. While achieving state-of-the-art results and even surpassing human accuracy in many challenging tasks, the adoption of deep learning in biomedicine has been comparatively slow. Here, we discuss key features of deep learning that may give this approach an edge over other machine learning methods. We then consider limitations and review a number of applications of deep learning in biomedical studies demonstrating proof of concept and practical utility.

MOTIVATION: Biological systems function through dynamic interactions among genes and their products, regulatory circuits and metabolic networks. Our development of the Pathway Tools software was motivated by the need to construct biological knowledge resources that combine these many types of data, and that enable users to find and comprehend data of interest as quickly as possible through query and visualization tools. Further, we sought to support the development of metabolic flux models from pathway databases, and to use pathway information to leverage the interpretation of high-throughput data sets. RESULTS: In the past 4 years we have enhanced the already extensive Pathway Tools software in several respects. It can now support metabolic-model execution through the Web, it provides a more accurate gap filler for metabolic models; it supports development of models for organism communities distributed across a spatial grid; and model results may be visualized graphically. Pathway Tools supports several new omics-data analysis tools including the Omics Dashboard, multi-pathway diagrams called pathway collages, a pathway-covering algorithm for metabolomics data analysis and an algorithm for generating mechanistic explanations of multi-omics data. We have also improved the core pathway/genome databases management capabilities of the software, providing new multi-organism search tools for organism communities, improved graphics rendering, faster performance and re-designed gene and metabolite pages. AVAILABILITY: The software is free for academic use; a fee is required for commercial use. See http://pathwaytools.com. CONTACT: pkarp@ai.sri.com. SUPPLEMENTARY INFORMATION: Supplementary data are available at Briefings in Bioinformatics online.

The construction of directionally selective units, and their use in the processing of visual motion, are considered. The zero crossings of delta 2G (x,y) * I(x,y) are located, as in Marr & Hildreth (1980). That is, the image is filtered through centre-surround receptive fields, and the zero values in the output are found. In addition, the time derivative delta[delta 2G(x,y) * I(x,y)]/delta t is measured at the zero crossings, and serves to constrain the local direction of motion to within 180 degrees. The direction of motion can be determined in a second stage, for example by combining the local constraints. The second part of the paper suggests a specific model of the information processing by the X and Y cells of the retina and lateral geniculate nucleus, and certain classes of cortical simple cells. A number of psychophysical and neurophysiological predictions are derived from the theory.

Recent advances in artificial intelligence are primarily driven by machine learning, a prediction technology. Prediction is useful because it is an input into decision-making. In order to appreciate the impact of artificial intelligence on jobs, it is important to understand the relative roles of prediction and decision tasks. We describe and provide examples of how artificial intelligence will affect labor, emphasizing differences between when the automation of prediction leads to automating decisions versus enhancing decision-making by humans.

Optical coherence tomography (OCT) is used for non-invasive diagnosis of diabetic macular edema assessing the retinal layers. In this paper, we propose a new fully convolutional deep architecture, termed ReLayNet, for end-to-end segmentation of retinal layers and fluid masses in eye OCT scans. ReLayNet uses a contracting path of convolutional blocks (encoders) to learn a hierarchy of contextual features, followed by an expansive path of convolutional blocks (decoders) for semantic segmentation. ReLayNet is trained to optimize a joint loss function comprising of weighted logistic regression and Dice overlap loss. The framework is validated on a publicly available benchmark dataset with comparisons against five state-of-the-art segmentation methods including two deep learning based approaches to substantiate its effectiveness.

The bilateral filter is a non-linear technique that can blur an image while respecting strong edges. Its ability to decompose an image into different scales without causing haloes after modification has made it ubiquitous in computational photography applications such as tone mapping, style transfer, relighting, and denoising. This text provides a graphical, intuitive introduction to bilateral filtering, a practical guide for efficient implementation and an overview of its numerous applications, as well as mathematical analysis.

Hyperspectral images (HSIs) provide detailed spectral information through hundreds of (narrow) spectral channels (also known as dimensionality or bands), which can be used to accurately classify diverse materials of interest. The increased dimensionality of such data makes it possible to significantly improve data information content but provides a challenge to conventional techniques (the so-called curse of dimensionality) for accurate analysis of HSIs.

Abstract The field of natural language processing has seen impressive progress in recent years, with neural network models replacing many of the traditional systems. A plethora of new models have been proposed, many of which are thought to be opaque compared to their feature-rich counterparts. This has led researchers to analyze, interpret, and evaluate neural networks in novel and more fine-grained ways. In this survey paper, we review analysis methods in neural language processing, categorize them according to prominent research trends, highlight existing limitations, and point to potential directions for future work.

The FAIR principles have been widely cited, endorsed and adopted by a broad range of stakeholders since their publication in 2016. By intention, the 15 FAIR guiding principles do not dictate specific technological implementations, but provide guidance for improving Findability, Accessibility, Interoperability and Reusability of digital resources. This has likely contributed to the broad adoption of the FAIR principles, because individual stakeholder communities can implement their own FAIR solutions. However, it has also resulted in inconsistent interpretations that carry the risk of leading to incompatible implementations. Thus, while the FAIR principles are formulated on a high level and may be interpreted and implemented in different ways, for true interoperability we need to support convergence in implementation choices that are widely accessible and (re)-usable. We introduce the concept of FAIR implementation considerations to assist accelerated global participation and convergence towards accessible, robust, widespread and consistent FAIR implementations. Any self-identified stakeholder community may either choose to reuse solutions from existing implementations, or when they spot a gap, accept the challenge to create the needed solution, which, ideally, can be used again by other communities in the future. Here, we provide interpretations and implementation considerations (choices and challenges) for each FAIR principle.

Market mechanisms, such as auctions, will likely rep resent a common interaction medium for agents on the Internet.The Michigan Internet AuctionBot is a flexible, scalable, and robust auction server that supports both software and human agents.The server manages many aimultancous auctions by separating the interface from the core auction procedures.This design provides a responsive interface and tolerates system and network disruptions, but necessitates careful timekeeping procedures to ensure temporal accuracy.The AuctionBot has been used extensively in classroom exercises, and is available to the general Internet population.Its flexible specification of auctions in terms of orthogonal parameters makes it a useful device for agent researchers exploring the design space of auction mechanisms.

Widespread adoption of artificial intelligence (AI) technologies is substantially affecting the human condition in ways that are not yet well understood. Negative unintended consequences abound including the perpetuation and exacerbation of societal inequalities and divisions via algorithmic decision making. We present six grand challenges for the scientific community to create AI technologies that are human-centered, that is, ethical, fair, and enhance the human condition. These grand challenges are the result of an international collaboration across academia, industry and government and represent the consensus views of a group of 26 experts in the field of human-centered artificial intelligence (HCAI). In essence, these challenges advocate for a human-centered approach to AI that (1) is centered in human well-being, (2) is designed responsibly, (3) respects privacy, (4) follows human-centered design principles, (5) is subject to appropriate governance and oversight, and (6) interacts with individuals while respecting human’s cognitive capacities. We hope that these challenges and their associated research directions serve as a call for action to conduct research and development in AI that serves as a force multiplier towards more fair, equitable and sustainable societies.

Emotion recognition in conversations is crucial for the development of empathetic machines. Present methods mostly ignore the role of inter-speaker dependency relations while classifying emotions in conversations. In this paper, we address recognizing utterance-level emotions in dyadic conversational videos. We propose a deep neural framework, termed conversational memory network, which leverages contextual information from the conversation history. The framework takes a multimodal approach comprising audio, visual and textual features with gated recurrent units to model past utterances of each speaker into memories. Such memories are then merged using attention-based hops to capture inter-speaker dependencies. Experiments show an accuracy improvement of 3-4% over the state of the art.

An edge in an image corresponds to a discontinuity in the intensity surface of the underlying scene. It can be approximated by a piecewise straight curve composed of edgels, i.e., short, linear edgeelements, each characterized by a direction and a position. The approach to edgel-detection here, is to fit a series of one-dimensional surfaces to each window (kernel of the operator) and accept the surfacedescription which is adequate in the least squares sense and has the fewest parameters. (A one-dimensional surface is one which is constant along some direction.) The tanh is an adequate basis for the step-edge and its combinations are adequate for the roof-edge and the line-edge. The proposed method of step-edgel detection is robust with respect to noise; for (step-size/noise) > 2.5, it has subpixel position localization (position < 3) and an angular localization better than 100; further, it is designed to be insensitive to smooth shading. These results are demonstrated by some simple analysis, statistical data, and edgel-images. Also included is a comparison of performance on a real image, with a typical operator (Difference-of-Gaussians). The results indicate that the proposed operator is superior with respect to detection, localization, and resolution.

The authors examine the advantages and limitations of current clinical radiologic AI systems, new clinical workflows, and the potential effect of generative AI and large multimodal foundation models.

Altered microglial states affect neuroinflammation, neurodegeneration, and disease but remain poorly understood. Here, we report 194,000 single-nucleus microglial transcriptomes and epigenomes across 443 human subjects and diverse Alzheimer's disease (AD) pathological phenotypes. We annotate 12 microglial transcriptional states, including AD-dysregulated homeostatic, inflammatory, and lipid-processing states. We identify 1,542 AD-differentially-expressed genes, including both microglia-state-specific and disease-stage-specific alterations. By integrating epigenomic, transcriptomic, and motif information, we infer upstream regulators of microglial cell states, gene-regulatory networks, enhancer-gene links, and transcription-factor-driven microglial state transitions. We demonstrate that ectopic expression of our predicted homeostatic-state activators induces homeostatic features in human iPSC-derived microglia-like cells, while inhibiting activators of inflammation can block inflammatory progression. Lastly, we pinpoint the expression of AD-risk genes in microglial states and differential expression of AD-risk genes and their regulators during AD progression. Overall, we provide insights underlying microglial states, including state-specific and AD-stage-specific microglial alterations at unprecedented resolution.

Advancements in deep learning and computer vision provide promising solutions for medical image analysis, potentially improving healthcare and patient outcomes. However, the prevailing paradigm of training deep learning models requires large quantities of labeled training data, which is both time-consuming and cost-prohibitive to curate for medical images. Self-supervised learning has the potential to make significant contributions to the development of robust medical imaging models through its ability to learn useful insights from copious medical datasets without labels. In this review, we provide consistent descriptions of different self-supervised learning strategies and compose a systematic review of papers published between 2012 and 2022 on PubMed, Scopus, and ArXiv that applied self-supervised learning to medical imaging classification. We screened a total of 412 relevant studies and included 79 papers for data extraction and analysis. With this comprehensive effort, we synthesize the collective knowledge of prior work and provide implementation guidelines for future researchers interested in applying self-supervised learning to their development of medical imaging classification models.