Coalition Battle Management Language (C-BML) Study Group Final Report

Interoperability across Modeling and Simulation (M&S) and Command and Control (C2) systems continues to be a significant problem for today\u27s warfighters. M&S is well-established in military training, but it can be a valuable asset for planning and mission rehearsal if M&S and C2 systems were able to exchange information, plans, and orders more effectively. To better support the warfighter with M&S based capabilities, an open standards-based framework is needed that establishes operational and technical coherence between C2 and M&S systems

An information assistant system for the prevention of tunnel vision in crisis management

In the crisis management environment, tunnel vision is a set of bias in decision makers’ cognitive process which often leads to incorrect understanding of the real crisis situation, biased perception of information, and improper decisions. The tunnel vision phenomenon is a consequence of both the challenges in the task and the natural limitation in a human being’s cognitive process. An information assistant system is proposed with the purpose of preventing tunnel vision. The system serves as a platform for monitoring the on-going crisis event. All information goes through the system before arrives at the user. The system enhances the data quality, reduces the data quantity and presents the crisis information in a manner that prevents or repairs the user’s cognitive overload. While working with such a system, the users (crisis managers) are expected to be more likely to stay aware of the actual situation, stay open minded to possibilities, and make proper decisions

Digital Twins: Review and Challenges

[EN] With the arises of Industry 4.0, numerous concepts have emerged; one of the main concepts is the digital twin (DT). DT is being widely used nowadays, however, as there are several uses in the existing literature; the understanding of the concept and its functioning can be diffuse. The main goal of this paper is to provide a review of the existing literature to clarify the concept, operation, and main characteristics of DT, to introduce the most current operating, communication, and usage trends related to this technology, and to present the performance of the synergy between DT and multi-agent system (MAS) technologies through a computer science approach.This work was partly supported by the Spanish Government (RTI2018-095390-B-C31)Juárez-Juárez, MG.; Botti, V.; Giret Boggino, AS. (2021). Digital Twins: Review and Challenges. Journal of Computing and Information Science in Engineering. 21(3):1-23. https://doi.org/10.1115/1.405024412321

Integrative methods for analyzing big data in precision medicine

We provide an overview of recent developments in big data analyses in the context of precision medicine and health informatics. With the advance in technologies capturing molecular and medical data, we entered the area of “Big Data” in biology and medicine. These data offer many opportunities to advance precision medicine. We outline key challenges in precision medicine and present recent advances in data integration-based methods to uncover personalized information from big data produced by various omics studies. We survey recent integrative methods for disease subtyping, biomarkers discovery, and drug repurposing, and list the tools that are available to domain scientists. Given the ever-growing nature of these big data, we highlight key issues that big data integration methods will face

Achieving manufacturing excellence through the integration of enterprise systems and simulation

This paper discusses the significance of the enterprise systems and simulation integration in improving shop floor’s short-term production planning capability. The ultimate objectives are to identify the integration protocols, optimisation parameters and critical design artefacts, thereby identifying key ‘ingredients’ that help in setting out a future research agenda in pursuit of optimum decision-making at the shop floor level. While the integration of enterprise systems and simulation gains a widespread agreement within the existing work, the optimality, scalability and flexibility of the schedules remained unanswered. Furthermore, there seems to be no commonality or pattern as to how many core modules are required to enable such a flexible and scalable integration. Nevertheless, the objective of such integration remains clear, i.e. to achieve an optimum total production time, lead time, cycle time, production release rates and cost. The issues presently faced by existing enterprise systems (ES), if properly addressed, can contribute to the achievement of manufacturing excellence and can help identify the building blocks for the software architectural platform enabling the integration

Gene fusions in cancer: Classification of fusion events and regulation patterns of fusion pathway neighbors

Cancer is a leading cause of death worldwide, resulting in an estimated 1.6 million mortalities and 600,000 new cases in the US alone in 2015. Gene fusions, hybrid genes formed from two originally separated genes, are known drivers of cancer. However, gene fusions have also been found in healthy cells due to routine errors in replication. This project aims to understand the role of gene fusion in cancer. Specifically, we seek to achieve two goals. First, we would like to develop a computational method that predicts if a gene fusion event is associated with the cancer or healthy sample. Second, we would like to use this information to determine and characterize molecular mechanisms behind the gene fusion events. Recent studies have attempted to address these problems, but without explicit consideration of the fact that there are overlapping fusion events in both cancer and healthy cells. Here, we address this problem using FUsion Enriched Learning of CANcer Mutations (FUELCAN), a semi-supervised model, which classifies all overlapping fusion events as unlabeled to start. The model is trained using the known cancer and healthy samples and tested using the unlabeled dataset. Unlabeled data is classified as associated with healthy or cancer samples and the top 20 data points are put back into the training set. The process continues until all have been appropriately classified. Three datasets were analyzed from Acute Lymphoblastic Leukemia (ALL), breast cancer and colorectal cancer. We obtained similar results for both supervised and semi-supervised classification. To improve our model, we assessed the functional landscape of gene fusion events and observed that the pathway neighbors of both gene fusion partners are differentially expressed in each cancer dataset. The significant neighbors are also shown to have direct connections to cancer pathways and functions, indicating that these gene fusions are important for cancer development. Future directions include applying the acquired transcriptomic knowledge to our machine learning algorithm, counting transcription factors and kinases within the gene fusion events and their neighbors and assessing the differences between upstream and downstream effects within the pathway neighbors

Integrative methods for analysing big data in precision medicine

We provide an overview of recent developments in big data analyses in the context of precision medicine and health informatics. With the advance in technologies capturing molecular and medical data, we entered the area of “Big Data” in biology and medicine. These data offer many opportunities to advance precision medicine. We outline key challenges in precision medicine and present recent advances in data integration-based methods to uncover personalized information from big data produced by various omics studies. We survey recent integrative methods for disease subtyping, biomarkers discovery, and drug repurposing, and list the tools that are available to domain scientists. Given the ever-growing nature of these big data, we highlight key issues that big data integration methods will face

Current advances in systems and integrative biology

Systems biology has gained a tremendous amount of interest in the last few years. This is partly due to the realization that traditional approaches focusing only on a few molecules at a time cannot describe the impact of aberrant or modulated molecular environments across a whole system. Furthermore, a hypothesis-driven study aims to prove or disprove its postulations, whereas a hypothesis-free systems approach can yield an unbiased and novel testable hypothesis as an end-result. This latter approach foregoes assumptions which predict how a biological system should react to an altered microenvironment within a cellular context, across a tissue or impacting on distant organs. Additionally, re-use of existing data by systematic data mining and re-stratification, one of the cornerstones of integrative systems biology, is also gaining attention. While tremendous efforts using a systems methodology have already yielded excellent results, it is apparent that a lack of suitable analytic tools and purpose-built databases poses a major bottleneck in applying a systematic workflow. This review addresses the current approaches used in systems analysis and obstacles often encountered in large-scale data analysis and integration which tend to go unnoticed, but have a direct impact on the final outcome of a systems approach. Its wide applicability, ranging from basic research, disease descriptors, pharmacological studies, to personalized medicine, makes this emerging approach well suited to address biological and medical questions where conventional methods are not ideal

Host Gene Expression and Genetic Susceptibility to Dengue Virus Infection in Vietnamese Children

Dengue has been a public health problem in over 120 tropical and subtropical countries. It is estimated that there are approximately 3.6 billion of the world’s population at risk of dengue virus (DENV) infection, and about 70-500 million DENV infections annually. Every year, about 36 million cases of dengue fever, of which about 2.1 million cases are dengue haemorrhagic fever and dengue shock syndrome (DHF/DSS) resulting in 21,000 deaths among children and young adults, are reported. The disease pathogenesis is still poorly understood. Effective antiviral drug, vaccine and animal model for the disease are not available. We conducted two global gene expression microarray studies and a genome-wide association study in order to identify prognostic markers of severe dengue in Vietnamese patients and to identify genetic markers that confer susceptibility to dengue and DSS. The results show that acute DENV infection is associated with over-presentation of transcripts that are related to interferon-inducible transcripts and canonical gene ontology terms that included response to virus, immune response, innate immune response and inflammatory response. Pathway and network analysis identified STAT1, STAT2, STAT3, IRF7, IRF9, IRF1, CEBPB and SP1 as key transcriptional factors mediating the early response. Interestingly, the only differences in the transcriptional signatures of early DSS and uncomplicated dengue cases were the greater abundance of several neutrophil-associated transcripts in patients who progressed to DSS. Host genetic study identified several single nucleotide polymorphisms (SNPs) that show strong evidence for association with dengue or DSS. None of the SNPs was significant at suggestive genome-wide level but ontology analysis of genes implicated by associated SNPs suggests biologically plausible functional relationships between the genes. This thesis provides insights into host gene response in DENV infection and also host genetic susceptibility to dengue which in turn could be useful hint for future studies in the field

Cognitive Hyperconnected Digital Transformation

Cognitive Hyperconnected Digital Transformation provides an overview of the current Internet of Things (IoT) landscape, ranging from research, innovation and development priorities to enabling technologies in a global context. It is intended as a standalone book in a series that covers the Internet of Things activities of the IERC-Internet of Things European Research Cluster, including both research and technological innovation, validation and deployment. The book builds on the ideas put forward by the European Research Cluster, the IoT European Platform Initiative (IoT-EPI) and the IoT European Large-Scale Pilots Programme, presenting global views and state-of-the-art results regarding the challenges facing IoT research, innovation, development and deployment in the next years. Hyperconnected environments integrating industrial/business/consumer IoT technologies and applications require new IoT open systems architectures integrated with network architecture (a knowledge-centric network for IoT), IoT system design and open, horizontal and interoperable platforms managing things that are digital, automated and connected and that function in real-time with remote access and control based on Internet-enabled tools. The IoT is bridging the physical world with the virtual world by combining augmented reality (AR), virtual reality (VR), machine learning and artificial intelligence (AI) to support the physical-digital integrations in the Internet of mobile things based on sensors/actuators, communication, analytics technologies, cyber-physical systems, software, cognitive systems and IoT platforms with multiple functionalities. These IoT systems have the potential to understand, learn, predict, adapt and operate autonomously. They can change future behaviour, while the combination of extensive parallel processing power, advanced algorithms and data sets feed the cognitive algorithms that allow the IoT systems to develop new services and propose new solutions. IoT technologies are moving into the industrial space and enhancing traditional industrial platforms with solutions that break free of device-, operating system- and protocol-dependency. Secure edge computing solutions replace local networks, web services replace software, and devices with networked programmable logic controllers (NPLCs) based on Internet protocols replace devices that use proprietary protocols. Information captured by edge devices on the factory floor is secure and accessible from any location in real time, opening the communication gateway both vertically (connecting machines across the factory and enabling the instant availability of data to stakeholders within operational silos) and horizontally (with one framework for the entire supply chain, across departments, business units, global factory locations and other markets). End-to-end security and privacy solutions in IoT space require agile, context-aware and scalable components with mechanisms that are both fluid and adaptive. The convergence of IT (information technology) and OT (operational technology) makes security and privacy by default a new important element where security is addressed at the architecture level, across applications and domains, using multi-layered distributed security measures. Blockchain is transforming industry operating models by adding trust to untrusted environments, providing distributed security mechanisms and transparent access to the information in the chain. Digital technology platforms are evolving, with IoT platforms integrating complex information systems, customer experience, analytics and intelligence to enable new capabilities and business models for digital business