Bioinformatics tools @ NBBNet: online infrastructure for the management and analysis of biological data

The use of informatics tools for the management and analysis of sequences for nucleic acids and proteins has resulted better throughout capability of wet lab research work to infer biological data to functional biological information. The field of computational biological information management and analysis is generally known as bioinformatics. We discuss some tools and processes which have been developed or integrated into a data management and information presentation pipeline by the Malaysian National Biotechnology and Bioinformatics Network. Central to this is the Bioinformatics Tools @ NBBnet online infrastructure system. This infrastructure system utilizes grid computing technology. In addition, the deployment of niche databases and database shells for research applying specific datasets such as a particular protein function, protein family or genomes have been discussed

On green routing and scheduling problem

The vehicle routing and scheduling problem has been studied with much interest within the last four decades. In this paper, some of the existing literature dealing with routing and scheduling problems with environmental issues is reviewed, and a description is provided of the problems that have been investigated and how they are treated using combinatorial optimization tools

Robots, drugs, reality and education: how the future will change how we think

Emerging technologies for learning report - Article exploring various future trends and their potential impact on educatio

Phylotastic! Making Tree-of-Life Knowledge Accessible, Reusable and Convenient

Scientists rarely reuse expert knowledge of phylogeny, in spite of years of effort to assemble a great "Tree of Life" (ToL). A notable exception involves the use of Phylomatic, which provides tools to generate custom phylogenies from a large, pre-computed, expert phylogeny of plant taxa. This suggests great potential for a more generalized system that, starting with a query consisting of a list of any known species, would rectify non-standard names, identify expert phylogenies containing the implicated taxa, prune away unneeded parts, and supply branch lengths and annotations, resulting in a custom phylogeny suited to the user's needs. Such a system could become a sustainable community resource if implemented as a distributed system of loosely coupled parts that interact through clearly defined interfaces. Results: With the aim of building such a "phylotastic" system, the NESCent Hackathons, Interoperability, Phylogenies (HIP) working group recruited 2 dozen scientist-programmers to a weeklong programming hackathon in June 2012. During the hackathon (and a three-month follow-up period), 5 teams produced designs, implementations, documentation, presentations, and tests including: (1) a generalized scheme for integrating components; (2) proof-of-concept pruners and controllers; (3) a meta-API for taxonomic name resolution services; (4) a system for storing, finding, and retrieving phylogenies using semantic web technologies for data exchange, storage, and querying; (5) an innovative new service, DateLife.org, which synthesizes pre-computed, time-calibrated phylogenies to assign ages to nodes; and (6) demonstration projects. These outcomes are accessible via a public code repository (GitHub.com), a website (www.phylotastic.org), and a server image. Conclusions: Approximately 9 person-months of effort (centered on a software development hackathon) resulted in the design and implementation of proof-of-concept software for 4 core phylotastic components, 3 controllers, and 3 end-user demonstration tools. While these products have substantial limitations, they suggest considerable potential for a distributed system that makes phylogenetic knowledge readily accessible in computable form. Widespread use of phylotastic systems will create an electronic marketplace for sharing phylogenetic knowledge that will spur innovation in other areas of the ToL enterprise, such as annotation of sources and methods and third-party methods of quality assessment.NESCent (the National Evolutionary Synthesis Center)NSF EF-0905606iPlant Collaborative (NSF) DBI-0735191Biodiversity Synthesis Center (BioSync) of the Encyclopedia of LifeComputer Science

IoT based model of healthcare for physiotherapy

Trabalho apresentado em 13th International Conference on Sensing Technology (ICST 2019), dezembro 2019, Sydney, Austrália.Small and reliable devices that are used not only in clinics or hospital but also in home, give information on movements, activities or other relevant data on person health and functioning. The data acquired by these devices would increase the accessibility to healthcare services and quality of care, in a safe environment. There are scarce data related to integration of Internet of Things (IoT) technologies into information system for physiotherapy or motor rehabilitation. In this work it is presented a framework for IoT based information system for physiotherapy. The presented model for physiotherapy includes: the capacity of IoT based information system to receive inputs from different modalities; support for modularity and common communication technologies for IoT; gateway capabilities and/or edge computing; data storage and analysis in Server, Cloud Server or Microservices. Research is needed for better understanding what is the optimal model and architecture for IoT platforms targeting people with different types of disabilities, as well as an optimal universal design that may increase the quality of care for people with disability.info:eu-repo/semantics/publishedVersio

Measuring Success for a Future Vision: Defining Impact in Science Gateways/Virtual Research Environments

Scholars worldwide leverage science gateways/VREs for a wide variety of research and education endeavors spanning diverse scientific fields. Evaluating the value of a given science gateway/VRE to its constituent community is critical in obtaining the financial and human resources necessary to sustain operations and increase adoption in the user community. In this paper, we feature a variety of exemplar science gateways/VREs and detail how they define impact in terms of e.g., their purpose, operation principles, and size of user base. Further, the exemplars recognize that their science gateways/VREs will continuously evolve with technological advancements and standards in cloud computing platforms, web service architectures, data management tools and cybersecurity. Correspondingly, we present a number of technology advances that could be incorporated in next-generation science gateways/VREs to enhance their scope and scale of their operations for greater success/impact. The exemplars are selected from owners of science gateways in the Science Gateways Community Institute (SGCI) clientele in the United States, and from the owners of VREs in the International Virtual Research Environment Interest Group (VRE-IG) of the Research Data Alliance. Thus, community-driven best practices and technology advances are compiled from diverse expert groups with an international perspective to envisage futuristic science gateway/VRE innovations

Open Science via HUBzero: Exploring Five Science Gateways Supporting and Growing their Open Science Communities

The research landscape applying computational methods has become increasingly interdisciplinary and complex regarding the research computing ecosystem with novel hardware, software, data, and lab instruments. Reproducibility of research results, the usability of tools, and sharing of methods are all crucial for timely collaboration for research and teaching. HUBzero is a widely used science gateway framework designed to support online communities with efficient sharing and publication processes. The paper discusses the growth of communities for the five science gateways nanoHUB, MyGeoHub, QUBEShub & SCORE, CUE4CHNG, and HubICL using the HUBzero Platform to foster open science and tackling education with a diverse set of approaches and target communities. The presented methods and magnitude of the communities elucidate successful means for science gateways for fostering open science and open education

IU PTI/UITS Research Technologies Annual Report: FY 2014

This Fiscal Year 2014 (FY2014) report outlines IU community accomplishments using IU's cyberinfrastructure, as they relate to several IU Bicentennial Strategic Plan goals and ongoing principles of excellence. The report includes research and discovery highlights