Deep-learning power and perspectives for genomic selection

Deep learning (DL) is revolutionizing the development of artificial intelligence systems. For example, before 2015, humans were better than artificial machines at classifying images and solving many problems of computer vision (related to object localization and detection using images), but nowadays, artificial machines have surpassed the ability of humans in this specific task. This is just one example of how the application of these models has surpassed human abilities and the performance of other machine-learning algorithms. For this reason, DL models have been adopted for genomic selection (GS). In this article we provide insight about the power of DL in solving complex prediction tasks and how combining GS and DL models can accelerate the revolution provoked by GS methodology in plant breeding. Furthermore, we will mention some trends of DL methods, emphasizing some areas of opportunity to really exploit the DL methodology in GS; however, we are aware that considerable research is required to be able not only to use the existing DL in conjunction with GS, but to adapt and develop DL methods that take the peculiarities of breeding inputs and GS into consideration.

Random-Forest-Bagging Broad Learning System With Applications for COVID-19 Pandemic

The rapid geographic spread of COVID-19, to which various factors may have contributed, has caused a global health crisis. Recently, the analysis and forecast of the COVID-19 pandemic have attracted worldwide attention. In this work, a large COVID-19 data set consisting of COVID-19 pandemic, COVID-19 testing capacity, economic level, demographic information, and geographic location data in 184 countries and 1241 areas from December 18, 2019, to September 30, 2020, were developed from public reports released by national health authorities and bureau of statistics. We proposed a machine learning model for COVID-19 prediction based on the broad learning system (BLS). Here, we leveraged random forest (RF) to screen out the key features. Then, we combine the bagging strategy and BLS to develop a random-forest-bagging BLS (RF-Bagging-BLS) approach to forecast the trend of the COVID-19 pandemic. In addition, we compared the forecasting results with linear regression (LR) model, [Formula: see text]-nearest neighbors (KNN), decision tree (DT), adaptive boosting (Ada), RF, gradient boosting DT (GBDT), support vector regression (SVR), extra trees (ETs) regressor, CatBoost (CAT), LightGBM (LGB), XGBoost (XGB), and BLS.The RF-Bagging BLS model showed better forecasting performance in terms of relative mean-square error (RMSE), coefficient of determination ([Formula: see text]), adjusted coefficient of determination ([Formula: see text]), median absolute error (MAD), and mean absolute percentage error (MAPE) than other models. Hence, the proposed model demonstrates superior predictive power over other benchmark models.

Construction of a multiepitope vaccine candidate against Fasciola hepatica: an in silico design using various immunogenic excretory/secretory antigens

BACKGROUND

Fasciola hepatica is an important pathogen that causes liver fluke disease in definitive hosts such as livestock animals and humans. Various excretory/secretory products have been used in serological diagnosis and vaccination studies targeting fasciolosis. There are no commercial vaccines against fasciolosis yet. Bioinformatic analysis based on computational methods have lower cost and provide faster output compared to conventional vaccine antigen discovery techniques. The aim of this study was to predict B- and T-cell specific epitopes of four excretory/secretory antigens (Kunitz-type serine protease inhibitor, cathepsin L1, helminth defense molecule, and glutathione S-transferase) of Fasciola hepatica and to construct a multiepitope vaccine candidate against fasciolosis.

METHODS AND RESULTS

Initially, nonallergic and the highest antigenic B- and T- cell epitopes were selected and then, physico-chemical parameters, secondary and tertiary structures of designed multiepitope vaccine candidate were predicted. Tertiary structure was refined and validated using online bioinformatic tools. Linear and discontinuous B-cell epitopes and disulfide bonds were determined. Finally, molecular docking analysis for MHC-I and MHC-II receptors was performed.

CONCLUSION

This multi-epitope vaccine candidate antigen, with high immunological properties, can be considered as a promising vaccine candidate for animal experiments and wet lab studies.

Toward Combatting COVID-19: A Risk Assessment System

The coronavirus disease 2019 (COVID-19) has rapidly become a significant public health emergency all over the world since it was first identified in Wuhan, China, in December 2019. Until today, massive disease-related data have been collected, both manually and through the Internet of Medical Things (IoMT), which can be potentially used to analyze the spread of the disease. On the other hand, with the help of IoMT, the analysis results of the current status of COVID-19 can be delivered to people in real time to enable situational awareness, which may help mitigate the disease spread in communities. However, current accessible data on COVID-19 are mostly at a macrolevel, such as for each state, county, or metropolitan area. For fine-grained areas, such as for each city, community, or geographical coordinate, COVID-19 data are usually not available, which prevents us from obtaining information on the disease spread in closer neighborhoods around us. To address this problem, in this article, we propose a two-level risk assessment system. In particular, we define a "risk index." Then, we develop a risk assessment model, called MK-DNN, by taking advantage of the multikernel density estimation (MKDE) and deep neural network (DNN). We train MK-DNN at the macrolevel (for each metro area), which subsequently enables us to obtain the risk indices at the microlevel (for each geographic coordinate). Moreover, a heuristic validation method is further designed to help validate the obtained microlevel risk indices. Simulations conducted on real-world data demonstrate the accuracy and validity of our proposed risk assessment system.

Why a Clinical Decision Support System is needed for Tinnitus?

Tinnitus is the perception of a phantom sound and the individual's reaction to it. Although much progress has been made, tinnitus remains an unresolved scientific and clinical issue, affecting more than 10% of the general population and having a high prevalence and socioeconomic burden. Clinical decision support systems (CDSS) are used to assist clinicians in their complex decision-making processes, having been proved that they improve healthcare delivery. In this paper, we present a CDSS for tinnitus, attempting to address the question which treatment approach is optimal for a particular patient based on specific parameters. The CDSS will be developed in the context of the EU-funded "UNITI" project and, after the project completion, it will be able to determine the suitability and expected attachment of a particular patient to a list of available clinical interventions, utilizing predictive and classification machine learning models.Clinical Relevance - The proposed clinically utilizable CDSS will be able to suggest the optimal treatment strategy for the tinnitus patient based on a set of heterogeneous data.

Diagnosis of COVID-19, vitality of emerging technologies and preventive measures

Coronavirus diseases-2019 (COVID-19) is becoming increasing serious and major threat to public health concerns. As a matter of fact, timely testing enhances the life-saving judgments on treatment and isolation of COVID-19 infected individuals at possible earliest stage which ultimately suppresses spread of infectious diseases. Many government and private research institutes and manufacturing companies are striving to develop reliable tests for prompt quantification of SARS-CoV-2. In this review, we summarize existing diagnostic methods as manual laboratory-based nucleic acid assays for COVID-19 and their limitations. Moreover, vitality of rapid and point of care serological tests together with emerging biosensing technologies has been discussed in details. Point of care tests with characteristics of rapidity, accurateness, portability, low cost and requiring non-specific devices possess great suitability in COVID-19 diagnosis and detection. Besides, this review also sheds light on several preventive measures to track and manage disease spread in current and future outbreaks of diseases.

Application of a Poisson deep neural network model for the prediction of count data in genome-based prediction

Genomic selection (GS) is revolutionizing conventional ways of developing new plants and animals. However, because it is a predictive methodology, GS strongly depends on statistical and machine learning to perform these predictions. For continuous outcomes, more models are available for GS. Unfortunately, for count data outcomes, there are few efficient statistical machine learning models for large datasets or for datasets with fewer observations than independent variables. For this reason, in this paper, we applied the univariate version of the Poisson deep neural network (PDNN) proposed earlier for genomic predictions of count data. The model was implemented with (a) the negative log-likelihood of Poisson distribution as the loss function, (b) the rectified linear activation unit as the activation function in hidden layers, and (c) the exponential activation function in the output layer. The advantage of the PDNN model is that it captures complex patterns in the data by implementing many nonlinear transformations in the hidden layers. Moreover, since it was implemented in Tensorflow as the back-end, and in Keras as the front-end, the model can be applied to moderate and large datasets, which is a significant advantage over previous GS models for count data. The PDNN model was compared with deep learning models with continuous outcomes, conventional generalized Poisson regression models, and conventional Bayesian regression methods. We found that the PDNN model outperformed the Bayesian regression and generalized Poisson regression methods in terms of prediction accuracy, although it was not better than the conventional deep neural network with continuous outcomes.

Transfer Learning for Alzheimer's Disease through Neuroimaging Biomarkers: A Systematic Review

Alzheimer's disease (AD) is a remarkable challenge for healthcare in the 21st century. Since 2017, deep learning models with transfer learning approaches have been gaining recognition in AD detection, and progression prediction by using neuroimaging biomarkers. This paper presents a systematic review of the current state of early AD detection by using deep learning models with transfer learning and neuroimaging biomarkers. Five databases were used and the results before screening report 215 studies published between 2010 and 2020. After screening, 13 studies met the inclusion criteria. We noted that the maximum accuracy achieved to date for AD classification is 98.20% by using the combination of 3D convolutional networks and local transfer learning, and that for the prognostic prediction of AD is 87.78% by using pre-trained 3D convolutional network-based architectures. The results show that transfer learning helps researchers in developing a more accurate system for the early diagnosis of AD. However, there is a need to consider some points in future research, such as improving the accuracy of the prognostic prediction of AD, exploring additional biomarkers such as tau-PET and amyloid-PET to understand highly discriminative feature representation to separate similar brain patterns, managing the size of the datasets due to the limited availability.

Using unmanned aerial systems and deep learning for agriculture mapping in Dubai

As part of the sustainable future vision, sustainable agriculture has become an essential pillar of the food security strategies formulated by the Dubai Government. Therefore, the Dubai Emirate began relying on new technology to increase productivity and efficiency. Agriculture applications also depend on accurate land monitoring for timely food security control and support actions. However, traditional monitoring requires field surveys to be performed by experts, which is costly, slow, and rare. Agriculture monitoring systems must be furnished with sustainable land use monitoring solutions, starting with remote sensing using drone surveys for affordable, efficient, and time-sensitive agriculture mapping. Hence, the Dubai Municipality is currently using Unmanned Aerial Vehicles (UAVs) to map the farming areas all over the Emirate, support locating lands conducive to cultivation, and create an accurate agriculture database contributing to the decision-making process in determining areas suitable for crop growth. This study used a novel object detection method coupled with geospatial analysis as an integrated workflow to detect individual crops. The UAV flights were executed using a Trimble UX5 (HP) over twelve communities across the Dubai Emirate for six months. Detection methods were applied to high-resolution drone images, consisting of RGB and near-infrared (NIR) bands. Advanced geoprocessing tools were also used to analyze, evaluate, and enhance the results. The performance of detection of the selected deep learning models are discussed (vegetation cover accuracy = 85.4%, F1-scores for date palms and ghaf trees = 96.03% and 94.54% respectively, with respect to visual interpretation ground truth); moreover, sample images from the datasets are used for demonstrations. The main aim is to offer specialists a solution for measuring and assessing living green vegetation cover derived from the processed images that is integrated. The results provide insight into using UAS and deep learning algorithms as a solution for sustainable agricultural mapping on a large scale.

Repairing the human with artificial intelligence in oncology

Artificial intelligence is a groundbreaking tool to learn and analyse higher features extracted from any dataset at large scale. This ability makes it ideal to facing any complex problem that may generally arise in the biomedical domain or oncology in particular. In this work, we envisage to provide a global vision of this mathematical discipline outgrowth by linking some other related subdomains such as transfer, reinforcement or federated learning. Complementary, we also introduce the recently popular method of topological data analysis that improves the performance of learning models.

Quantifying the Autonomy of Structurally Diverse Automata: A Comparison of Candidate Measures

Should the internal structure of a system matter when it comes to autonomy? While there is still no consensus on a rigorous, quantifiable definition of autonomy, multiple candidate measures and related quantities have been proposed across various disciplines, including graph-theory, information-theory, and complex system science. Here, I review and compare a range of measures related to autonomy and intelligent behavior. To that end, I analyzed the structural, information-theoretical, causal, and dynamical properties of simple artificial agents evolved to solve a spatial navigation task, with or without a need for associative memory. By contrast to standard artificial neural networks with fixed architectures and node functions, here, independent evolution simulations produced successful agents with diverse neural architectures and functions. This makes it possible to distinguish quantities that characterize task demands and input-output behavior, from those that capture intrinsic differences between substrates, which may help to determine more stringent requisites for autonomous behavior and the means to measure it.

Detecting Plant Stress Using Thermal and Optical Imagery From an Unoccupied Aerial Vehicle

Soil and water salinization has global impact on the sustainability of agricultural production, affecting the health and condition of staple crops and reducing potential yields. Identifying or developing salt-tolerant varieties of commercial crops is a potential pathway to enhance food and water security and deliver on the global demand for an increase in food supplies. Our study focuses on a phenotyping experiment that was designed to establish the influence of salinity stress on a diversity panel of the wild tomato species, Solanum pimpinellifolium. Here, we explore how unoccupied aerial vehicles (UAVs) equipped with both an optical and thermal infrared camera can be used to map and monitor plant temperature (Tp) changes in response to applied salinity stress. An object-based image analysis approach was developed to delineate individual tomato plants, while a green-red vegetation index derived from calibrated red, green, and blue (RGB) optical data allowed the discrimination of vegetation from the soil background. Tp was retrieved simultaneously from the co-mounted thermal camera, with Tp deviation from the ambient temperature and its change across time used as a potential indication of stress. Results showed that Tp differences between salt-treated and control plants were detectable across the five separate UAV campaigns undertaken during the field experiment. Using a simple statistical approach, we show that crop water stress index values greater than 0.36 indicated conditions of plant stress. The optimum period to collect UAV-based Tp for identifying plant stress was found between fruit formation and ripening. Preliminary results also indicate that UAV-based Tp may be used to detect plant stress before it is visually apparent, although further research with more frequent image collections and field observations is required. Our findings provide a tool to accelerate field phenotyping to identify salt-resistant germplasm and may allow farmers to alleviate yield losses through early detection of plant stress via management interventions.

Estimation of Left Ventricular End-Systolic Elastance From Brachial Pressure Waveform via Deep Learning

Determination of left ventricular (LV) end-systolic elastance (E es ) is of utmost importance for assessing the cardiac systolic function and hemodynamical state in humans. Yet, the clinical use of E es is not established due to the invasive nature and high costs of the existing measuring techniques. The objective of this study is to introduce a method to assess cardiac contractility, using as a sole measurement an arterial blood pressure (BP) waveform. Particularly, we aim to provide evidence on the potential in using the morphology of the brachial BP waveform and its time derivative for predicting LV E es via convolution neural networks (CNNs). The requirement of a broad training dataset is addressed by the use of an in silico dataset (n = 3,748) which is generated by a validated one-dimensional mathematical model of the cardiovasculature. We evaluated two CNN configurations: 1) a one-channel CNN (CNN1) with only the raw brachial BP signal as an input, and 2) a two-channel CNN (CNN2) using as inputs both the brachial BP wave and its time derivative. Accurate predictions were yielded using both CNN configurations. For CNN1, Pearson's correlation coefficient (r) and RMSE were equal to 0.86 and 0.27 mmHg/ml, respectively. The performance was found to be greatly improved for CNN2 (r = 0.97 and RMSE = 0.13 mmHg/ml). Moreover, all absolute errors from CNN2 were found to be less than 0.5 mmHg/ml. Importantly, the brachial BP wave appeared to be a promising source of information for estimating E es . Predictions were found to be in good agreement with the reference E es values over an extensive range of LV contractility values and loading conditions. Therefore, the proposed methodology could be easily transferred to the bedside and potentially facilitate the clinical use of E es for monitoring the contractile state of the heart in the real-life setting.

Change in Threads on Twitter Regarding Influenza, Vaccines, and Vaccination During the COVID-19 Pandemic: Artificial Intelligence-Based Infodemiology Study

Background

Discussions of health issues on social media are a crucial information source reflecting real-world responses regarding events and opinions. They are often important in public health care, since these are influencing pathways that affect vaccination decision-making by hesitant individuals. Artificial intelligence methodologies based on internet search engine queries have been suggested to detect disease outbreaks and population behavior. Among social media, Twitter is a common platform of choice to search and share opinions and (mis)information about health care issues, including vaccination and vaccines.

Objective

Our primary objective was to support the design and implementation of future eHealth strategies and interventions on social media to increase the quality of targeted communication campaigns and therefore increase influenza vaccination rates. Our goal was to define an artificial intelligence–based approach to elucidate how threads in Twitter on influenza vaccination changed during the COVID-19 pandemic. Such findings may support adapted vaccination campaigns and could be generalized to other health-related mass communications.

Methods

The study comprised the following 5 stages: (1) collecting tweets from Twitter related to influenza, vaccines, and vaccination in the United States; (2) data cleansing and storage using machine learning techniques; (3) identifying terms, hashtags, and topics related to influenza, vaccines, and vaccination; (4) building a dynamic folksonomy of the previously defined vocabulary (terms and topics) to support the understanding of its trends; and (5) labeling and evaluating the folksonomy.

Results

We collected and analyzed 2,782,720 tweets of 420,617 unique users between December 30, 2019, and April 30, 2021. These tweets were in English, were from the United States, and included at least one of the following terms: “flu,” “influenza,” “vaccination,” “vaccine,” and “vaxx.” We noticed that the prevalence of the terms vaccine and vaccination increased over 2020, and that “flu” and “covid” occurrences were inversely correlated as “flu” disappeared over time from the tweets. By combining word embedding and clustering, we then identified a folksonomy built around the following 3 topics dominating the content of the collected tweets: “health and medicine (biological and clinical aspects),” “protection and responsibility,” and “politics.” By analyzing terms frequently appearing together, we noticed that the tweets were related mainly to COVID-19 pandemic events.

Conclusions

This study focused initially on vaccination against influenza and moved to vaccination against COVID-19. Infoveillance supported by machine learning on Twitter and other social media about topics related to vaccines and vaccination against communicable diseases and their trends can lead to the design of personalized messages encouraging targeted subpopulations’ engagement in vaccination. A greater likelihood that a targeted population receives a personalized message is associated with higher response, engagement, and proactiveness of the target population for the vaccination process.

A Chatbot to Engage Parents of Preterm and Term Infants on Parental Stress, Parental Sleep, and Infant Feeding: Usability and Feasibility Study

BACKGROUND

Parents commonly experience anxiety, worry, and psychological distress in caring for newborn infants, particularly those born preterm. Web-based therapist services may offer greater accessibility and timely psychological support for parents but are nevertheless labor intensive due to their interactive nature. Chatbots that simulate humanlike conversations show promise for such interactive applications.

OBJECTIVE

The aim of this study is to explore the usability and feasibility of chatbot technology for gathering real-life conversation data on stress, sleep, and infant feeding from parents with newborn infants and to investigate differences between the experiences of parents with preterm and term infants.

METHODS

Parents aged ≥21 years with infants aged ≤6 months were enrolled from November 2018 to March 2019. Three chatbot scripts (stress, sleep, feeding) were developed to capture conversations with parents via their mobile devices. Parents completed a chatbot usability questionnaire upon study completion. Responses to closed-ended questions and manually coded open-ended responses were summarized descriptively. Open-ended responses were analyzed using the latent Dirichlet allocation method to uncover semantic topics.

RESULTS

Of 45 enrolled participants (20 preterm, 25 term), 26 completed the study. Parents rated the chatbot as "easy" to use (mean 4.08, SD 0.74; 1=very difficult, 5=very easy) and were "satisfied" (mean 3.81, SD 0.90; 1=very dissatisfied, 5 very satisfied). Of 45 enrolled parents, those with preterm infants reported emotional stress more frequently than did parents of term infants (33 vs 24 occasions). Parents generally reported satisfactory sleep quality. The preterm group reported feeding problems more frequently than did the term group (8 vs 2 occasions). In stress domain conversations, topics linked to "discomfort" and "tiredness" were more prevalent in preterm group conversations, whereas the topic of "positive feelings" occurred more frequently in the term group conversations. Interestingly, feeding-related topics dominated the content of sleep domain conversations, suggesting that frequent or irregular feeding may affect parents' ability to get adequate sleep or rest.

CONCLUSIONS

The chatbot was successfully used to collect real-time conversation data on stress, sleep, and infant feeding from a group of 45 parents. In their chatbot conversations, term group parents frequently expressed positive emotions, whereas preterm group parents frequently expressed physical discomfort and tiredness, as well as emotional stress. Overall, parents who completed the study gave positive feedback on their user experience with the chatbot as a tool to express their thoughts and concerns.

TRIAL REGISTRATION

ClinicalTrials.gov NCT03630679; https://clinicaltrials.gov/ct2/show/NCT03630679.

Evaluating the Clinical Feasibility of an Artificial Intelligence-Powered, Web-Based Clinical Decision Support System for the Treatment of Depression in Adults: Longitudinal Feasibility Study

BACKGROUND

Approximately two-thirds of patients with major depressive disorder do not achieve remission during their first treatment. There has been increasing interest in the use of digital, artificial intelligence-powered clinical decision support systems (CDSSs) to assist physicians in their treatment selection and management, improving the personalization and use of best practices such as measurement-based care. Previous literature shows that for digital mental health tools to be successful, the tool must be easy for patients and physicians to use and feasible within existing clinical workflows.

OBJECTIVE

This study aims to examine the feasibility of an artificial intelligence-powered CDSS, which combines the operationalized 2016 Canadian Network for Mood and Anxiety Treatments guidelines with a neural network-based individualized treatment remission prediction.

METHODS

Owing to the COVID-19 pandemic, the study was adapted to be completed entirely remotely. A total of 7 physicians recruited outpatients diagnosed with major depressive disorder according to the Diagnostic and Statistical Manual of Mental Disorders, Fifth Edition criteria. Patients completed a minimum of one visit without the CDSS (baseline) and 2 subsequent visits where the CDSS was used by the physician (visits 1 and 2). The primary outcome of interest was change in appointment length after the introduction of the CDSS as a proxy for feasibility. Feasibility and acceptability data were collected through self-report questionnaires and semistructured interviews.

RESULTS

Data were collected between January and November 2020. A total of 17 patients were enrolled in the study; of the 17 patients, 14 (82%) completed the study. There was no significant difference in appointment length between visits (introduction of the tool did not increase appointment length; F2,24=0.805; mean squared error 58.08; P=.46). In total, 92% (12/13) of patients and 71% (5/7) of physicians felt that the tool was easy to use; 62% (8/13) of patients and 71% (5/7) of physicians rated that they trusted the CDSS. Of the 13 patients, 6 (46%) felt that the patient-clinician relationship significantly or somewhat improved, whereas 7 (54%) felt that it did not change.

CONCLUSIONS

Our findings confirm that the integration of the tool does not significantly increase appointment length and suggest that the CDSS is easy to use and may have positive effects on the patient-physician relationship for some patients. The CDSS is feasible and ready for effectiveness studies.

TRIAL REGISTRATION

ClinicalTrials.gov NCT04061642; http://clinicaltrials.gov/ct2/show/NCT04061642.

LOCO: The 88-million-word language of conspiracy corpus

The spread of online conspiracy theories represents a serious threat to society. To understand the content of conspiracies, here we present the language of conspiracy (LOCO) corpus. LOCO is an 88-million-token corpus composed of topic-matched conspiracy (N = 23,937) and mainstream (N = 72,806) documents harvested from 150 websites. Mimicking internet user behavior, documents were identified using Google by crossing a set of seed phrases with a set of websites. LOCO is hierarchically structured, meaning that each document is cross-nested within websites (N = 150) and topics (N = 600, on three different resolutions). A rich set of linguistic features (N = 287) and metadata includes upload date, measures of social media engagement, measures of website popularity, size, and traffic, as well as political bias and factual reporting annotations. We explored LOCO's features from different perspectives showing that documents track important societal events through time (e.g., Princess Diana's death, Sandy Hook school shooting, coronavirus outbreaks), while patterns of lexical features (e.g., deception, power, dominance) overlap with those extracted from online social media communities dedicated to conspiracy theories. By computing within-subcorpus cosine similarity, we derived a subset of the most representative conspiracy documents (N = 4,227), which, compared to other conspiracy documents, display prototypical and exaggerated conspiratorial language and are more frequently shared on Facebook. We also show that conspiracy website users navigate to websites via more direct means than mainstream users, suggesting confirmation bias. LOCO and related datasets are freely available at https://osf.io/snpcg/ .

Role of artificial intelligence in peptide vaccine design against RNA viruses

RNA viruses have high rate of replication and mutation that help them adapt and change according to their environmental conditions. Many viral mutants are the cause of various severe and lethal diseases. Vaccines, on the other hand have the capacity to protect us from infectious diseases by eliciting antibody or cell-mediated immune responses that are pathogen-specific. While there are a few reviews pertaining to the use of artificial intelligence (AI) for SARS-COV-2 vaccine development, none focus on peptide vaccination for RNA viruses and the important role played by AI in it. Peptide vaccine which is slowly coming to be recognized as a safe and effective vaccination strategy has the capacity to overcome the mutant escape problem which is also being currently faced by SARS-COV-2 vaccines in circulation.Here we review the present scenario of peptide vaccines which are developed using mathematical and computational statistics methods to prevent the spread of disease caused by RNA viruses. We also focus on the importance and current stage of AI and mathematical evolutionary modeling using machine learning tools in the establishment of these new peptide vaccines for the control of viral disease.

Empiricism in the foundations of cognition

This paper traces the empiricist program from early debates between nativism and behaviorism within philosophy, through debates about early connectionist approaches within the cognitive sciences, and up to their recent iterations within the domain of deep learning. We demonstrate how current debates on the nature of cognition via deep network architecture echo some of the core issues from the Chomsky/Quine debate and investigate the strength of support offered by these various lines of research to the empiricist standpoint. Referencing literature from both computer science and philosophy, we conclude that the current state of deep learning does not offer strong encouragement to the empiricist side despite some arguments to the contrary.

Skin Lesion Classification Based on Surface Fractal Dimensions and Statistical Color Cluster Features Using an Ensemble of Machine Learning Techniques

Simple Summary

This study aimed to investigate the efficacy of implementation of novel skin surface fractal dimension features as an auxiliary diagnostic method for melanoma recognition. We therefore examined the skin lesion classification accuracy of the kNN-CV algorithm and of the proposed Radial basis function neural network model. We found an increased accuracy of classification when the fractal analysis is added to the classical color distribution analysis. Our results indicate that by using a reliable classifier, more opportunities exist to detect timely cancerous skin lesions.

Abstract

(1) Background: An approach for skin cancer recognition and classification by implementation of a novel combination of features and two classifiers, as an auxiliary diagnostic method, is proposed. (2) Methods: The predictions are made by k-nearest neighbor with a 5-fold cross validation algorithm and a neural network model to assist dermatologists in the diagnosis of cancerous skin lesions. As a main contribution, this work proposes a descriptor that combines skin surface fractal dimension and relevant color area features for skin lesion classification purposes. The surface fractal dimension is computed using a 2D generalization of Higuchi’s method. A clustering method allows for the selection of the relevant color distribution in skin lesion images by determining the average percentage of color areas within the nevi and melanoma lesion areas. In a classification stage, the Higuchi fractal dimensions (HFDs) and the color features are classified, separately, using a kNN-CV algorithm. In addition, these features are prototypes for a Radial basis function neural network (RBFNN) classifier. The efficiency of our algorithms was verified by utilizing images belonging to the 7-Point, Med-Node, and PH2 databases; (3) Results: Experimental results show that the accuracy of the proposed RBFNN model in skin cancer classification is 95.42% for 7-Point, 94.71% for Med-Node, and 94.88% for PH2, which are all significantly better than that of the kNN algorithm. (4) Conclusions: 2D Higuchi’s surface fractal features have not been previously used for skin lesion classification purpose. We used fractal features further correlated to color features to create a RBFNN classifier that provides high accuracies of classification.

An Introduction to Topological Data Analysis: Fundamental and Practical Aspects for Data Scientists

With the recent explosion in the amount, the variety, and the dimensionality of available data, identifying, extracting, and exploiting their underlying structure has become a problem of fundamental importance for data analysis and statistical learning. Topological data analysis (tda) is a recent and fast-growing field providing a set of new topological and geometric tools to infer relevant features for possibly complex data. It proposes new well-founded mathematical theories and computational tools that can be used independently or in combination with other data analysis and statistical learning techniques. This article is a brief introduction, through a few selected topics, to basic fundamental and practical aspects of tda for nonexperts.

A Promising and Challenging Approach: Radiologists' Perspective on Deep Learning and Artificial Intelligence for Fighting COVID-19

Chest X-rays (CXR) and computed tomography (CT) are the main medical imaging modalities used against the increased worldwide spread of the 2019 coronavirus disease (COVID-19) epidemic. Machine learning (ML) and artificial intelligence (AI) technology, based on medical imaging fully extracting and utilizing the hidden information in massive medical imaging data, have been used in COVID-19 research of disease diagnosis and classification, treatment decision-making, efficacy evaluation, and prognosis prediction. This review article describes the extensive research of medical image-based ML and AI methods in preventing and controlling COVID-19, and summarizes their characteristics, differences, and significance in terms of application direction, image collection, and algorithm improvement, from the perspective of radiologists. The limitations and challenges faced by these systems and technologies, such as generalization and robustness, are discussed to indicate future research directions.

Artificial intelligence in cardiology: the debate continues

In 1955, when John McCarthy and his colleagues proposed their first study of artificial intelligence, they suggested that 'every aspect of learning or any other feature of intelligence can in principle be so precisely described that a machine can be made to simulate it'. Whether that might ever be possible would depend on how we define intelligence, but what is indisputable is that new methods are needed to analyse and interpret the copious information provided by digital medical images, genomic databases, and biobanks. Technological advances have enabled applications of artificial intelligence (AI) including machine learning (ML) to be implemented into clinical practice, and their related scientific literature is exploding. Advocates argue enthusiastically that AI will transform many aspects of clinical cardiovascular medicine, while sceptics stress the importance of caution and the need for more evidence. This report summarizes the main opposing arguments that were presented in a debate at the 2021 Congress of the European Society of Cardiology. Artificial intelligence is an advanced analytical technique that should be considered when conventional statistical methods are insufficient, but testing a hypothesis or solving a clinical problem-not finding another application for AI-remains the most important objective. Artificial intelligence and ML methods should be transparent and interpretable, if they are to be approved by regulators and trusted to provide support for clinical decisions. Physicians need to understand AI methods and collaborate with engineers. Few applications have yet been shown to have a positive impact on clinical outcomes, so investment in research is essential.

Artificial intelligence, public control, and supply of a vital commodity like COVID-19 vaccine

The article examines the problem of ensuring the political stability of a democratic social system with a shortage of a vital commodity (like vaccine against COVID-19). In such a system, members of society citizens assess the authorities. Thus, actions by the authorities to increase the supply of this commodity can contribute to citizens' approval and hence political stability. However, this supply is influenced by random factors, the actions of competitors, etc. Therefore, citizens do not have sufficient information about all the possibilities of supplying, and it is difficult for them to make the right decisions. Such citizen unawareness can be exploited by unscrupulous politicians to achieve personal targets. Therefore, it is necessary to organize public control to motivate politicians to use all available opportunities in supplying. The goal of the paper is to build such a digital mechanism of public control of the politicians by citizens, which would best assess and stimulate the activities of the authorities to improve the supply of a vital commodity. In the age of artificial intelligence, such digital public control in the face of uncertainty can be based on digital machine learning. In addition, it is necessary to take into account and model the activities of politicians associated with the presence of their own targets that do not coincide with public ones. Such politicians can use the learning of citizens for their own targets. The objective of the article is to build an optimal digital mechanism of public control in a two-level model of a democratic social system-a digital society. At its top level, there is the Citizen, who gives an assessment for the Politico located at the lower level. In turn, the Politico can influence the supplying of a vital commodity. Political stability is guaranteed if the Citizen regularly approves of the Politico's actions to increase this supply. However, the Politico may not use the opportunities available to him to offer a commodity to achieve a personal target. To avoid this, the Politico's control mechanism is proposed. It includes the procedure for digital learning of the Citizen, as well as a procedure for assessing the Politico activity. Sufficient conditions have been found for the synthesis of such the Politico's control mechanism, at which stochastic possibilities of increasing the supply of a vital commodity are used. The example of such the Politico's control mechanism is considered on the case of supply of the COVID-19 vaccine in England.

GDP Forecasting: Machine Learning, Linear or Autoregression?

This paper compares the predictive power of different models to forecast the real U.S. GDP. Using quarterly data from 1976 to 2020, we find that the machine learning K-Nearest Neighbour (KNN) model captures the self-predictive ability of the U.S. GDP and performs better than traditional time series analysis. We explore the inclusion of predictors such as the yield curve, its latent factors, and a set of macroeconomic variables in order to increase the level of forecasting accuracy. The predictions result to be improved only when considering long forecast horizons. The use of machine learning algorithm provides additional guidance for data-driven decision making.

Essay content and style are strongly related to household income and SAT scores: Evidence from 60,000 undergraduate applications

There is substantial evidence of the relationship between household income and achievement on the standardized tests often required for college admissions, yet little comparable inquiry considers the essays typically required of applicants to selective U.S. colleges and universities. We used a corpus of 240,000 admission essays submitted by 60,000 applicants to the University of California in November 2016 to measure relationships between the content of admission essays, self-reported household income, and SAT scores. We quantified essay content using correlated topic modeling and essay style using Linguistic Inquiry and Word Count. We found that essay content and style had stronger correlations to self-reported household income than did SAT scores and that essays explained much of the variance in SAT scores. This analysis shows that essays encode similar information as the SAT and suggests that college admission protocols should attend to how social class is encoded in non-numerical components of applications.

Success stories of AI in drug discovery - where do things stand?

INTRODUCTION

Artificial intelligence (AI) in drug discovery and development (DDD) has gained more traction in the past few years. Many scientific reviews have already been made available in this area. Thus, in this review, the authors have focused on the success stories of AI-driven drug candidates and the scientometric analysis of the literature in this field.

AREA COVERED

The authors explore the literature to compile the success stories of AI-driven drug candidates that are currently being assessed in clinical trials or have investigational new drug (IND) status. The authors also provide the reader with their expert perspectives for future developments and their opinions on the field.

EXPERT OPINION

Partnerships between AI companies and the pharma industry are booming. The early signs of the impact of AI on DDD are encouraging, and the pharma industry is hoping for breakthroughs. AI can be a promising technology to unveil the greatest successes, but it has yet to be proven as AI is still at the embryonic stage.

Bayesian theories of consciousness: a review in search for a minimal unifying model

The goal of the paper is to review existing work on consciousness within the frameworks of Predictive Processing, Active Inference, and Free Energy Principle. The emphasis is put on the role played by the precision and complexity of the internal generative model. In the light of those proposals, these two properties appear to be the minimal necessary components for the emergence of conscious experience-a Minimal Unifying Model of consciousness.

Artificial intelligence in gynecologic cancers: Current status and future challenges - A systematic review

OBJECTIVE

Over the past years, the application of artificial intelligence (AI) in medicine has increased rapidly, especially in diagnostics, and in the near future, the role of AI in medicine will become progressively more important. In this study, we elucidated the state of AI research on gynecologic cancers.

METHODS

A search was conducted in three databases-PubMed, Web of Science, and Scopus-for research papers dated between January 2010 and December 2020. As keywords, we used "artificial intelligence," "deep learning," "machine learning," and "neural network," combined with "cervical cancer," "endometrial cancer," "uterine cancer," and "ovarian cancer." We excluded genomic and molecular research, as well as automated pap-smear diagnoses and digital colposcopy.

RESULTS

Of 1632 articles, 71 were eligible, including 34 on cervical cancer, 13 on endometrial cancer, three on uterine sarcoma, and 21 on ovarian cancer. A total of 35 studies (49%) used imaging data and 36 studies (51%) used value-based data as the input data. Magnetic resonance imaging (MRI), computed tomography (CT), ultrasound, cytology, and hysteroscopy data were used as imaging data, and the patients' backgrounds, blood examinations, tumor markers, and indices in pathological examination were used as value-based data. The targets of prediction were definitive diagnosis and prognostic outcome, including overall survival and lymph node metastasis. The size of the dataset was relatively small because 64 studies (90%) included less than 1000 cases, and the median size was 214 cases. The models were evaluated by accuracy scores, area under the receiver operating curve (AUC), and sensitivity/specificity. Owing to the heterogeneity, a quantitative synthesis was not appropriate in this review.

CONCLUSIONS

In gynecologic oncology, more studies have been conducted on cervical cancer than on ovarian and endometrial cancers. Prognoses were mainly used in the study of cervical cancer, whereas diagnoses were primarily used for studying ovarian cancer. The proficiency of the study design for endometrial cancer and uterine sarcoma was unclear because of the small number of studies conducted. The small size of the dataset and the lack of a dataset for external validation were indicated as the challenges of the studies.

An Image-Based Benchmark Dataset and a Novel Object Detector for Water Surface Object Detection

Water surface object detection is one of the most significant tasks in autonomous driving and water surface vision applications. To date, existing public large-scale datasets collected from websites do not focus on specific scenarios. As a characteristic of these datasets, the quantity of the images and instances is also still at a low level. To accelerate the development of water surface autonomous driving, this paper proposes a large-scale, high-quality annotated benchmark dataset, named Water Surface Object Detection Dataset (WSODD), to benchmark different water surface object detection algorithms. The proposed dataset consists of 7,467 water surface images in different water environments, climate conditions, and shooting times. In addition, the dataset comprises a total of 14 common object categories and 21,911 instances. Simultaneously, more specific scenarios are focused on in WSODD. In order to find a straightforward architecture to provide good performance on WSODD, a new object detector, named CRB-Net, is proposed to serve as a baseline. In experiments, CRB-Net was compared with 16 state-of-the-art object detection methods and outperformed all of them in terms of detection precision. In this paper, we further discuss the effect of the dataset diversity (e.g., instance size, lighting conditions), training set size, and dataset details (e.g., method of categorization). Cross-dataset validation shows that WSODD significantly outperforms other relevant datasets and that the adaptability of CRB-Net is excellent.

Machine learning for dose-volume histogram based clinical decision-making support system in radiation therapy plans for brain tumors

•

Extraction, analysis, and interpretation of historical treatment planning data is valuable but very time-consuming.

•

Proposed machine learning model classifies radiotherapy plans based on their treatment planning objectives and trade-offs.

•

Application of double nested cross-validation enabled to build a robust model that achieved 94% accuracy on a testing data.

•

Model reasoning investigated with SHAP values showed consistency with clinical observations.

Purpose

To create and investigate a novel, clinical decision-support system using machine learning (ML).

Methods and Materials

The ML model was developed based on 79 radiotherapy plans of brain tumor patients that were prescribed a total dose of 60 Gy delivered with volumetric-modulated arc therapy (VMAT). Structures considered for analysis included planning target volume (PTV), brainstem, cochleae, and optic chiasm. The model aimed to classify the target variable that included class-0 corresponding to plans for which the PTV treatment planning objective was met and class-1 that was associated with plans for which the PTV objective was not met due to the priority trade-off to meet one or more organs-at-risk constraints. Several models were evaluated using double-nested cross-validation and an area-under-the-curve (AUC) metric, with the highest performing one selected for further investigation. The model predictions were explained with Shapely additive explanation (SHAP) interaction values.

Results

The highest-performing model was Logistic Regression achieving an accuracy of 93.8 ± 4.1% and AUC of 0.98 ± 0.02 on the testing data. The SHAP analysis indicated that the ΔD_99% metric for PTV had the greatest influence on the model predictions. The least important feature was ΔD_MAX for the left and right cochleae.

Conclusions

The trained model achieved satisfactory accuracy and can be used by medical physicists in a data-driven quality assurance program as well as by radiation oncologists to support their decision-making process in terms of treatment plan approval and potential plan modifications. Model explanation analysis showed that the model relies on clinically valid logic when making predictions.

Wearable Assistive Robotics: A Perspective on Current Challenges and Future Trends

Wearable assistive robotics is an emerging technology with the potential to assist humans with sensorimotor impairments to perform daily activities. This assistance enables individuals to be physically and socially active, perform activities independently, and recover quality of life. These benefits to society have motivated the study of several robotic approaches, developing systems ranging from rigid to soft robots with single and multimodal sensing, heuristics and machine learning methods, and from manual to autonomous control for assistance of the upper and lower limbs. This type of wearable robotic technology, being in direct contact and interaction with the body, needs to comply with a variety of requirements to make the system and assistance efficient, safe and usable on a daily basis by the individual. This paper presents a brief review of the progress achieved in recent years, the current challenges and trends for the design and deployment of wearable assistive robotics including the clinical and user need, material and sensing technology, machine learning methods for perception and control, adaptability and acceptability, datasets and standards, and translation from lab to the real world.

Machine-Learned Molecular Surface and Its Application to Implicit Solvent Simulations

Implicit solvent models, such as Poisson-Boltzmann models, play important roles in computational studies of biomolecules. A vital step in almost all implicit solvent models is to determine the solvent-solute interface, and the solvent excluded surface (SES) is the most widely used interface definition in these models. However, classical algorithms used for computing SES are geometry-based, so that they are neither suitable for parallel implementations nor convenient for obtaining surface derivatives. To address the limitations, we explored a machine learning strategy to obtain a level set formulation for the SES. The training process was conducted in three steps, eventually leading to a model with over 95% agreement with the classical SES. Visualization of tested molecular surfaces shows that the machine-learned SES overlaps with the classical SES in almost all situations. Further analyses show that the machine-learned SES is incredibly stable in terms of rotational variation of tested molecules. Our timing analysis shows that the machine-learned SES is roughly 2.5 times as efficient as the classical SES routine implemented in Amber/PBSA on a tested central processing unit (CPU) platform. We expect further performance gain on massively parallel platforms such as graphics processing units (GPUs) given the ease in converting the machine-learned SES to a parallel procedure. We also implemented the machine-learned SES into the Amber/PBSA program to study its performance on reaction field energy calculation. The analysis shows that the two sets of reaction field energies are highly consistent with a 1% deviation on average. Given its level set formulation, we expect the machine-learned SES to be applied in molecular simulations that require either surface derivatives or high efficiency on parallel computing platforms.

Text Mining and Sentiment Analysis of Newspaper Headlines

Text analytics are well-known in the modern era for extracting information and patterns from text. However, no study has attempted to illustrate the pattern and priorities of newspaper headlines in Bangladesh using a combination of text analytics techniques. The purpose of this paper is to examine the pattern of words that appeared on the front page of a well-known daily English newspaper in Bangladesh, The Daily Star, in 2018 and 2019. The elucidation of that era’s possible social and political context was also attempted using word patterns. The study employs three widely used and contemporary text mining techniques: word clouds, sentiment analysis, and cluster analysis. The word cloud reveals that election, kill, cricket, and Rohingya-related terms appeared more than 60 times in 2018, whereas BNP, poll, kill, AL, and Khaleda appeared more than 80 times in 2019. These indicated the country’s passion for cricket, political turmoil, and Rohingya-related issues. Furthermore, sentiment analysis reveals that words of fear and negative emotions appeared more than 600 times, whereas anger, anticipation, sadness, trust, and positive-type emotions came up more than 400 times in both years. Finally, the clustering method demonstrates that election, politics, deaths, digital security act, Rohingya, and cricket-related words exhibit similarity and belong to a similar group in 2019, whereas rape, deaths, road, and fire-related words clustered in 2018 alongside a similar-appearing group. In general, this analysis demonstrates how vividly the text mining approach depicts Bangladesh’s social, political, and law-and-order situation, particularly during election season and the country’s cricket craze, and also validates the significance of the text mining approach to understanding the overall view of a country during a particular time in an efficient manner.

Artificial Intelligence Techniques for the Non-invasive Detection of COVID-19 Through the Analysis of Voice Signals

Healthcare sensors represent a valid and non-invasive instrument to capture and analyse physiological data. Several vital signals, such as voice signals, can be acquired anytime and anywhere, achieved with the least possible discomfort to the patient thanks to the development of increasingly advanced devices. The integration of sensors with artificial intelligence techniques contributes to the realization of faster and easier solutions aimed at improving early diagnosis, personalized treatment, remote patient monitoring and better decision making, all tasks vital in a critical situation such as that of the COVID-19 pandemic. This paper presents a study about the possibility to support the early and non-invasive detection of COVID-19 through the analysis of voice signals by means of the main machine learning algorithms. If demonstrated, this detection capacity could be embedded in a powerful mobile screening application. To perform this important study, the Coswara dataset is considered. The aim of this investigation is not only to evaluate which machine learning technique best distinguishes a healthy voice from a pathological one, but also to identify which vowel sound is most seriously affected by COVID-19 and is, therefore, most reliable in detecting the pathology. The results show that Random Forest is the technique that classifies most accurately healthy and pathological voices. Moreover, the evaluation of the vowel /e/ allows the detection of the effects of COVID-19 on voice quality with a better accuracy than the other vowels.

Reduced false positives in autism screening via digital biomarkers inferred from deep comorbidity patterns

Here, we develop digital biomarkers for autism spectrum disorder (ASD), computed from patterns of past medical encounters, identifying children at high risk with an area under the receiver operating characteristic exceeding 80% from shortly after 2 years of age for either sex, and across two independent patient databases. We leverage uncharted ASD comorbidities, with no requirement of additional blood work, or procedures, to estimate the autism comorbid risk score (ACoR), during the earliest years when interventions are the most effective. ACoR has superior predictive performance to common questionnaire-based screenings and can reduce their current socioeconomic, ethnic, and demographic biases. In addition, we can condition on current screening scores to either halve the state-of-the-art false-positive rate or boost sensitivity to over 60%, while maintaining specificity above 95%. Thus, ACoR can significantly reduce the median diagnostic age, reducing diagnostic delays and accelerating access to evidence-based interventions.

Prediction Models for Agonists and Antagonists of Molecular Initiation Events for Toxicity Pathways Using an Improved Deep-Learning-Based Quantitative Structure-Activity Relationship System

In silico approaches have been studied intensively to assess the toxicological risk of various chemical compounds as alternatives to traditional in vivo animal tests. Among these approaches, quantitative structure-activity relationship (QSAR) analysis has the advantages that it is able to construct models to predict the biological properties of chemicals based on structural information. Previously, we reported a deep learning (DL) algorithm-based QSAR approach called DeepSnap-DL for high-performance prediction modeling of the agonist and antagonist activity of key molecules in molecular initiating events in toxicological pathways using optimized hyperparameters. In the present study, to achieve high throughput in the DeepSnap-DL system-which consists of the preparation of three-dimensional molecular structures of chemical compounds, the generation of snapshot images from the three-dimensional chemical structures, DL, and statistical calculations-we propose an improved DeepSnap-DL approach. Using this improved system, we constructed 59 prediction models for the agonist and antagonist activity of key molecules in the Tox21 10K library. The results indicate that modeling of the agonist and antagonist activity with high prediction performance and high throughput can be achieved by optimizing suitable parameters in the improved DeepSnap-DL system.

Identification of Scams in Initial Coin Offerings With Machine Learning

Following the emergence of cryptocurrencies, the field of digital assets experienced a sudden explosion of interest among institutional investors. However, regarding ICOs, there were a lot of scams involving the disappearance of firms after they had collected significant amounts of funds. We study how well one can predict if an offering will turn out to be a scam, doing so based on the characteristics known ex-ante. We therefore examine which of these characteristics are the most important predictors of a scam, and how they influence the probability of a scam. We use detailed data with 160 features from about 300 ICOs that took place before March 2018 and succeeded in raising most of their required capital. Various machine learning algorithms are applied together with novel XAI tools in order to identify the most important predictors of an offering's failure and understand the shape of relationships. It turns out that based on the features known ex-ante, one can predict a scam with an accuracy of about 65-70%, and that nonlinear machine learning models perform better than traditional logistic regression and its regularized extensions.

SHAP and LIME: An Evaluation of Discriminative Power in Credit Risk

In credit risk estimation, the most important element is obtaining a probability of default as close as possible to the effective risk. This effort quickly prompted new, powerful algorithms that reach a far higher accuracy, but at the cost of losing intelligibility, such as Gradient Boosting or ensemble methods. These models are usually referred to as "black-boxes", implying that you know the inputs and the output, but there is little way to understand what is going on under the hood. As a response to that, we have seen several different Explainable AI models flourish in recent years, with the aim of letting the user see why the black-box gave a certain output. In this context, we evaluate two very popular eXplainable AI (XAI) models in their ability to discriminate observations into groups, through the application of both unsupervised and predictive modeling to the weights these XAI models assign to features locally. The evaluation is carried out on real Small and Medium Enterprises data, obtained from official italian repositories, and may form the basis for the employment of such XAI models for post-processing features extraction.

Image Features of Magnetic Resonance Angiography under Deep Learning in Exploring the Effect of Comprehensive Rehabilitation Nursing on the Neurological Function Recovery of Patients with Acute Stroke

This study was to explore the effects of imaging characteristics of magnetic resonance angiography (MRA) based on deep learning on the comprehensive rehabilitation nursing on the neurological recovery of patients with acute stroke. In this study, 84 patients with acute stroke who were treated in hospital were selected as the research objects, and they were rolled into a control group (routine care) and an experimental group (comprehensive rehabilitation care). The dense dilated block-convolution neural network (DD-CNN) algorithm under deep learning for cerebrovascular was adopted to assess the effect of comprehensive rehabilitation care on the neurological recovery of patients with acute stroke. The results showed that the Berg scale scores, Fugl-Meyer scores, and Functional Independence Measure (FIM) scores of the experimental group of patients after 6 weeks and 12 weeks of comprehensive rehabilitation nursing were greatly different from those before treatment, showing statistical differences (P < 0.05). Compared with conventional magnetic resonance imaging (MRI) images, MRA images based on CNN algorithm, Dense Net algorithm, and DD-CNN algorithm can more clearly show the patient's cerebral artery occlusion. The average dice similarity coefficient (DSC) values of CNN algorithm, Dense Net algorithm, and DD-CNN algorithm were determined to be 84.3%, 95.7%, and 97.8%, respectively; the average sensitivity (Sen) values of the three algorithms were 76.1%, 95.4%, and 96.8%, respectively; and the average accuracy (Acc) values were 87.9%, 96.3%, and 97.9%, respectively. Thus, there were statistically obvious differences among the three algorithms in terms of average values of DSC, Sen, and Acc (P < 0.05). The MRA images processed by the DD-CNN algorithm showed that the degree of neurological recovery of the experimental group was observably greater than that of the control group, and the difference was statistically obvious (P < 0.05). In short, the image features of MRA based on the deep learning DD-CNN algorithm showed good application value in studying the effect of comprehensive rehabilitation nursing on the neurological recovery of patients with acute stroke, and it was worthy of promotion.

Machine Learning-Aided Causal Inference Framework for Environmental Data Analysis: A COVID-19 Case Study

Links between environmental conditions (e.g., meteorological factors and air quality) and COVID-19 severity have been reported worldwide. However, the existing frameworks of data analysis are insufficient or inefficient to investigate the potential causality behind the associations involving multidimensional factors and complicated interrelationships. Thus, a causal inference framework equipped with the structural causal model aided by machine learning methods was proposed and applied to examine the potential causal relationships between COVID-19 severity and 10 environmental factors (NO₂, O₃, PM2.5, PM10, SO₂, CO, average air temperature, atmospheric pressure, relative humidity, and wind speed) in 166 Chinese cities. The cities were grouped into three clusters based on the socio-economic features. Time-series data from these cities in each cluster were analyzed in different pandemic phases. The robustness check refuted most potential causal relationships' estimations (89 out of 90). Only one potential relationship about air temperature passed the final test with a causal effect of 0.041 under a specific cluster-phase condition. The results indicate that the environmental factors are unlikely to cause noticeable aggravation of the COVID-19 pandemic. This study also demonstrated the high value and potential of the proposed method in investigating causal problems with observational data in environmental or other fields.

Bayesian uncertainty quantification for data-driven equation learning

Equation learning aims to infer differential equation models from data. While a number of studies have shown that differential equation models can be successfully identified when the data are sufficiently detailed and corrupted with relatively small amounts of noise, the relationship between observation noise and uncertainty in the learned differential equation models remains unexplored. We demonstrate that for noisy datasets there exists great variation in both the structure of the learned differential equation models and their parameter values. We explore how to exploit multiple datasets to quantify uncertainty in the learned models, and at the same time draw mechanistic conclusions about the target differential equations. We showcase our results using simulation data from a relatively straightforward agent-based model (ABM) which has a well-characterized partial differential equation description that provides highly accurate predictions of averaged ABM behaviours in relevant regions of parameter space. Our approach combines equation learning methods with Bayesian inference approaches so that a quantification of uncertainty can be given by the posterior parameter distribution of the learned model.

Improvement Using Planomics Features on Prediction and Classification of Patient-Specific Quality Assurance Using Head and Neck Volumetric Modulated Arc Therapy Plan

Purpose: This study aimed to evaluate the utility of a new plan feature (planomics feature) for predicting the results of patient-specific quality assurance using the head and neck (H&N) volumetric modulated arc therapy (VMAT) plan. Methods: One hundred and thirty-one H&N VMAT plans in our institution from 2019 to 2021 were retrospectively collected. Dosimetric verification for all plans was carried out using the portal dosimetry system integrated into the Eclipse treatment planning system based on the electronic portal imaging devices. Gamma passing rates (GPR) were analyzed using three gamma indices of 3%/3 mm, 3%/2 mm, and 2%/2 mm with a 10% dose threshold. Forty-eight conventional features affecting the dose delivery accuracy were used in the study, and 2,476 planomics features were extracted based on the radiotherapy plan file. Three prediction and classification models using conventional features (CF), planomics features (PF), and hybrid features (HF) combining two sets of features were constructed by the gradient boosting regressor (GBR) and Ridge classifier for each GPR of 3%/3 mm, 3%/2 mm, and 2%/2 mm, respectively. The absolute prediction error (APE) and the area under the curve (AUC) were adopted for assessing the performance of prediction and classification models. Results: In the GPR prediction, the average APE of the models using CF, PF, and HF was 1.3 ± 1.2%/3.6 ± 3.0%, 1.7 ± 1.5%/3.8 ± 3.5%, and 1.1 ± 1.0%/4.1 ± 3.1% for 2%/2 mm; 0.7 ± 0.6%/2.0 ± 2.0%, 1.0±1.1%/2.2 ± 1.8%, and 0.6 ± 0.6%/2.2 ± 1.9% for 3%/2 mm; and 0.4 ± 0.3%/1.2 ± 1.2%, 0.4±0.5%/1.3 ± 1.0%, and 0.3±0.3%/1.2 ± 1.1% for 3%/3 mm, respectively. In the regression prediction, three models give a similar modeling performance for predicting the GPR. The classification results were 0.67 ± 0.03/0.66 ± 0.07, 0.77 ± 0.03/0.73 ± 0.06, and 0.78 ± 0.02/0.75 ± 0.04 for 3%/3 mm, respectively. For 3%/2 mm, the AUCs of the training and testing cohorts were 0.64 ± 0.03/0.62 ± 0.07, 0.70 ± 0.03/0.67 ± 0.06, and 0.75 ± 0.03/0.71 ± 0.07, respectively, and for 2%/2 mm, the average AUCs of the training and testing cohorts were 0.72 ± 0.03/0.72 ± 0.06, 0.78 ± 0.04/0.73 ± 0.07, and 0.81 ± 0.03/0.75 ± 0.06, respectively. In the classification, the PF model has a better classification performance than the CF model. Moreover, the HF model provides the best result among the three classifications models. Conclusions: The planomics features can be used for predicting and classifying the GPR results and for improving the model performance after combining the conventional features for the GPR classification.

From internal models toward metacognitive AI

In several papers published in Biological Cybernetics in the 1980s and 1990s, Kawato and colleagues proposed computational models explaining how internal models are acquired in the cerebellum. These models were later supported by neurophysiological experiments using monkeys and neuroimaging experiments involving humans. These early studies influenced neuroscience from basic, sensory-motor control to higher cognitive functions. One of the most perplexing enigmas related to internal models is to understand the neural mechanisms that enable animals to learn large-dimensional problems with so few trials. Consciousness and metacognition-the ability to monitor one's own thoughts, may be part of the solution to this enigma. Based on literature reviews of the past 20 years, here we propose a computational neuroscience model of metacognition. The model comprises a modular hierarchical reinforcement-learning architecture of parallel and layered, generative-inverse model pairs. In the prefrontal cortex, a distributed executive network called the "cognitive reality monitoring network" (CRMN) orchestrates conscious involvement of generative-inverse model pairs in perception and action. Based on mismatches between computations by generative and inverse models, as well as reward prediction errors, CRMN computes a "responsibility signal" that gates selection and learning of pairs in perception, action, and reinforcement learning. A high responsibility signal is given to the pairs that best capture the external world, that are competent in movements (small mismatch), and that are capable of reinforcement learning (small reward-prediction error). CRMN selects pairs with higher responsibility signals as objects of metacognition, and consciousness is determined by the entropy of responsibility signals across all pairs. This model could lead to new-generation AI, which exhibits metacognition, consciousness, dimension reduction, selection of modules and corresponding representations, and learning from small samples. It may also lead to the development of a new scientific paradigm that enables the causal study of consciousness by combining CRMN and decoded neurofeedback.

Artificial Intelligence and COVID-19 Using Chest CT Scan and Chest X-ray Images: Machine Learning and Deep Learning Approaches for Diagnosis and Treatment

OBJECTIVE

To report an overview and update on Artificial Intelligence (AI) and COVID-19 using chest Computed Tomography (CT) scan and chest X-ray images (CXR). Machine Learning and Deep Learning Approaches for Diagnosis and Treatment were identified.

METHODS

Several electronic datasets were analyzed. The search covered the years from January 2019 to June 2021. The inclusion criteria were studied evaluating the use of AI methods in COVID-19 disease reporting performance results in terms of accuracy or precision or area under Receiver Operating Characteristic (ROC) curve (AUC).

RESULTS

Twenty-two studies met the inclusion criteria: 13 papers were based on AI in CXR and 10 based on AI in CT. The summarized mean value of the accuracy and precision of CXR in COVID-19 disease were 93.7% ± 10.0% of standard deviation (range 68.4-99.9%) and 95.7% ± 7.1% of standard deviation (range 83.0-100.0%), respectively. The summarized mean value of the accuracy and specificity of CT in COVID-19 disease were 89.1% ± 7.3% of standard deviation (range 78.0-99.9%) and 94.5 ± 6.4% of standard deviation (range 86.0-100.0%), respectively. No statistically significant difference in summarized accuracy mean value between CXR and CT was observed using the Chi square test (p value > 0.05).

CONCLUSIONS

Summarized accuracy of the selected papers is high but there was an important variability; however, less in CT studies compared to CXR studies. Nonetheless, AI approaches could be used in the identification of disease clusters, monitoring of cases, prediction of the future outbreaks, mortality risk, COVID-19 diagnosis, and disease management.

Toward a productive evolutionary understanding of music

We discuss approaches to the study of the evolution of music (sect. R1); challenges to each of the two theories of the origins of music presented in the companion target articles (sect. R2); future directions for testing them (sect. R3); and priorities for better understanding the nature of music (sect. R4).

Predicting the Economic Impact of the COVID-19 Pandemic in the United Kingdom Using Time-Series Mining

The COVID-19 pandemic has brought economic activity to a near standstill as many countries imposed very strict restrictions on movement to halt the spread of the virus. This study aims at assessing the economic impacts of COVID-19 in the United Kingdom (UK) using artificial intelligence (AI) and data from previous economic crises to predict future economic impacts. The macroeconomic indicators, gross domestic products (GDP) and GDP growth, and data on the performance of three primary industries in the UK (the construction, production and service industries) were analysed using a comparison with the pattern of previous economic crises. In this research, we experimented with the effectiveness of both continuous and categorical time-series forecasting on predicting future values to generate more accurate and useful results in the economic domain. Continuous value predictions indicate that GDP growth in 2021 will remain steady, but at around −8.5% contraction, compared to the baseline figures before the pandemic. Further, the categorical predictions indicate that there will be no quarterly drop in GDP following the first quarter of 2021. This study provided evidence-based data on the economic effects of COVID-19 that can be used to plan necessary recovery procedures and to take appropriate actions to support the economy.