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  1. 5041
    “…PathVisio is a freely available, open-source tool published under the Apache 2.0 license (http://www.apache.org/licenses/LICENSE-2.0). It is implemented in Java and thus runs on all major operating systems. …”
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    PathVisio 3: An Extendable Pathway Analysis Toolbox
  2. 5042
    “…The software is open source and built in Java. RESULTS: Ontology Term Organizer (OTO; http://biosemantics.arizona.edu/OTO/) is a user-friendly, web-based, consensus-promoting, open source application for organizing domain terms by dragging and dropping terms to appropriate locations. …”
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    OTO: Ontology Term Organizer
  3. 5043
    “…Analysis results and elements from paper prototypes were used to design a Web-based prototype using the D3 JavaScript library and VIVO data. Preliminary usability studies asked 20 participants to use the tool and to provide feedback through semistructured interviews and completion of the System Usability Scale (SUS). …”
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    Finding Collaborators: Toward Interactive Discovery Tools for Research Network Systems
  4. 5044
    “…The COI, COII, 16S rDNA and concatenated COI+COII+16S and COI+COII+16S+28S+ITS-2 nucleotide sequences revealed that B. caudata from the northern hemisphere (Peninsular Malaysia, East Malaysia, Thailand) was distinctly different from the southern hemisphere (Indonesia: Java, Bali and Lombok), without common haplotype between them. …”
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    Multigene Phylogeography of Bactrocera caudata (Insecta: Tephritidae): Distinct Genetic Lineages in Northern and Southern Hemispheres
  5. 5045
    “…METHODS: The present study compared the performance of the FTS and the Card Test in community surveys that were conducted in southern Sri Lanka and in Indonesia (Central Java) in areas with low-level persistence of LF following multiple rounds of MDA with diethylcarbamazine plus albendazole. …”
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    A comparison of two tests for filarial antigenemia in areas in Sri Lanka and Indonesia with low-level persistence of lymphatic filariasis following mass drug administration
  6. 5046
    “…The resulting program code are in Java or C programming language. To validate the automatic handling of boundary conditions in the program code generator, we generated simulation code using the FHN, Luo-Rudy 1, and Hund-Rudy cell models and run cell-to-cell coupling and action potential propagation simulations. …”
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    Program Code Generator for Cardiac Electrophysiology Simulation with Automatic PDE Boundary Condition Handling
  7. 5047
    “…Lab Retriever adds a graphical user interface, written primarily in JavaScript, on top of a C++ implementation of the previously published R code of Balding. …”
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    Lab Retriever: a software tool for calculating likelihood ratios incorporating a probability of drop-out for forensic DNA profiles
  8. 5048
    por Genc, Begum, Dogrusoz, Ugur
    Publicado 2016
    “…Availability and implementation: An implementation of our algorithm in Java is available within ChiLay library (https://github.com/iVis-at-Bilkent/chilay). …”
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    An algorithm for automated layout of process description maps drawn in SBGN
  9. 5049
    “…JC-RM is implemented in Java and uses the COPASI API. JC-RM runs on all major operating systems, with minimal system requirements. …”
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    JigCell Run Manager (JC-RM): a tool for managing large sets of biochemical model parametrizations
  10. 5050
    “…Tidepool’s software utilizes the principles of modular components, modern web design including REST APIs and JavaScript, cloud computing, agile development methodology, and robust privacy and security. …”
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    A case study in open source innovation: developing the Tidepool Platform for interoperability in type 1 diabetes management
  11. 5051
    “…The dataset has been created in Neo4j and is available for download at https://bitbucket.org/ncl-intbio/genediseaserepositioning along with a Java implementation of the searching algorithm.…”
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    An Integrated Data Driven Approach to Drug Repositioning Using Gene-Disease Associations
  12. 5052
    “…METHODS: Trial Promoter is developed in Ruby on Rails, HTML, cascading style sheet (CSS), and JavaScript. In order to test the tool and the correctness of the generated messages, clinical trials (n=46) were randomized into social media messages and distributed via the microblogging social media platform Twitter and the social network Facebook. …”
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    Trial Promoter: A Web-Based Tool for Boosting the Promotion of Clinical Research Through Social Media
  13. 5053
    “…CONCLUSION: The v3NLP Framework is a set of functionalities and components that provide Java developers with the ability to create novel annotators and to place those annotators into pipelines and applications to extract concepts from clinical text. …”
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    v3NLP Framework: Tools to Build Applications for Extracting Concepts from Clinical Text
  14. 5054
    por Zheng, Qi, Grice, Elizabeth A.
    Publicado 2016
    “…AlignerBoost is implemented as a uniform Java application and is freely available at https://github.com/Grice-Lab/AlignerBoost.…”
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    AlignerBoost: A Generalized Software Toolkit for Boosting Next-Gen Sequencing Mapping Accuracy Using a Bayesian-Based Mapping Quality Framework
  15. 5055
    “…The research sites were located in different ecological and socio-economic contexts in the provinces of Papua, West Kalimantan and Central Java, Indonesia. Twenty-one maps of land cover and land use were drawn with local community participation during focus group discussions in seven villages. …”
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    Completing the Picture: Importance of Considering Participatory Mapping for REDD+ Measurement, Reporting and Verification (MRV)
  16. 5056
    “…The phylogenetic position and validity of Myja, Guyvalvoria, Leostyletus and Subcuthona still need to be tested in future studies when material becomes available.…”
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    A Radical Solution: The Phylogeny of the Nudibranch Family Fionidae
  17. 5057
    “…In order to demonstrate the feasibility of extracting truly computable molecules from PDF file formats in a fast and efficient manner, we have developed a Java based application, namely ChemEngine. This program recognizes textual patterns from the supplementary data and generates standard molecular structure data (bond matrix, atomic coordinates) that can be subjected to a multitude of computational processes automatically. …”
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    ChemEngine: harvesting 3D chemical structures of supplementary data from PDF files
  18. 5058
    “…Phylogenetic background of the isolates was determined according to the presence of the chuA, yjaA and TspE4C2 markers. Theisolates were examined to determine a selection of antibiotic resistance genes including tetA, tetB, aadA, sulI and dhfrV by polymerase chain reaction. …”
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    Determination of antibiotic resistance genes in relation to phylogenetic background in Escherichia coli isolates from fecal samples of healthy pet cats in Kerman city
  19. 5059
    “…The WebUI consisted of key OCT displays and controls ported to a webpage using HTML and JavaScript. Client–server relationships were created between the WebUI and the OCT system computer. …”
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    Wireless, Web-Based Interactive Control of Optical Coherence Tomography with Mobile Devices
  20. 5060
    “…Genetic interaction network was expanded using String, a biomolecular interaction network JAVA platform. Meanwhile, molecular function, biological process and signaling pathway enrichment analysis were performed based on Gene Ontology and Kyoto Encyclopedia of Genes and Genomes. …”
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    Clarifying the molecular mechanism associated with carfilzomib resistance in human multiple myeloma using microarray gene expression profile and genetic interaction network
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