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  1. 4821
    “…BACKGROUND: SpectraClassifier (SC) is a Java solution for designing and implementing Magnetic Resonance Spectroscopy (MRS)-based classifiers. …”
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    SpectraClassifier 1.0: a user friendly, automated MRS-based classifier-development system
  2. 4822
    “…RESULTS: The JADE electronic portal (e-portal: http://www.jade-adf.org) is implemented as a Java application using the Apache web server, the mySQL database and the Cocoon framework. …”
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    From design to implementation - The Joint Asia Diabetes Evaluation (JADE) program: A descriptive report of an electronic web-based diabetes management program
  3. 4823
    “…Availability: Online and JAVA standalone versions of SuperTriplets are available at http://www.supertriplets.univ-montp2.fr/ Contact: vincent.ranwez@univ-montp2.fr…”
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    SuperTriplets: a triplet-based supertree approach to phylogenomics
  4. 4824
    “…Example code demonstrate that Web services can be used to access the SEED using common bioinformatics programming languages such as Perl, Python, and Java. CONCLUSIONS: We present a novel approach to access the SEED database. …”
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    Accessing the SEED Genome Databases via Web Services API: Tools for Programmers
  5. 4825
    “…Our previous surveys in Java, Indonesia, revealed that most antibiotic use was probably unnecessary or ineffective. …”
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    Cross-sectional study of availability and pharmaceutical quality of antibiotics requested with or without prescription (Over The Counter) in Surabaya, Indonesia
  6. 4826
    “…Source code in C++ and Java is provided, as are native binaries for Linux, Mac OS X and Windows systems.…”
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    PeakAnalyzer: Genome-wide annotation of chromatin binding and modification loci
  7. 4827
    “…METHODS: Current and former IDUs were recruited by respondent driven sampling in an urban setting in Java, and interviewed regarding drug use and HIV risk behavior using the European Addiction Severity Index and the Blood Borne Virus Transmission Questionnaire. …”
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    High risk behavior for HIV transmission among former injecting drug users: a survey from Indonesia
  8. 4828
    “…CONCLUSIONS/SIGNIFICANCE: With user-friendly implementation in an open-source Java package, this powerful framework will provide an important complementary solution to identify more true susceptibility loci with modest or even small effect size in current GWAS for complex diseases.…”
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    A Knowledge-Based Weighting Framework to Boost the Power of Genome-Wide Association Studies
  9. 4829
    “…AVAILABILITY: A portable Java implementation of our MCFS-ID method is freely available for academic users and can be obtained at: http://www.ipipan.eu/staff/m.draminski/software.htm.…”
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    Computational Analysis of Molecular Interaction Networks Underlying Change of HIV-1 Resistance to Selected Reverse Transcriptase Inhibitors
  10. 4830
    por Čech, Petr, Svozil, Daniel
    Publicado 2011
    “…The application also allows to display and investigate biomolecular structures via an integrated Java application Jmol. CONCLUSIONS: The mmView software system is primarily intended for educational purposes, but it can also serve as a useful research tool. …”
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    mmView: a web-based viewer of the mmCIF format
  11. 4831
    “…We have also improved the user interface and portability: alongside standalone executable and Java source code of the program, PPfold is also available as a free plugin to the CLC Workbenches. …”
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    Multithreaded comparative RNA secondary structure prediction using stochastic context-free grammars
  12. 4832
    “…Krona combines a variant of radial, space-filling displays with parametric coloring and interactive polar-coordinate zooming. The HTML5 and JavaScript implementation enables fully interactive charts that can be explored with any modern Web browser, without the need for installed software or plug-ins. …”
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    Interactive metagenomic visualization in a Web browser
  13. 4833
    “…An implementation of parsimonious higher-order HMMs is available as part of the open source Java library Jstacs (www.jstacs.de/index.php/PHHMM).…”
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    Parsimonious Higher-Order Hidden Markov Models for Improved Array-CGH Analysis with Applications to Arabidopsis thaliana
  14. 4834
    “…The applet is written in JavaScript and reads genetic records from a tab-delimited text file on the server, so it is cross-platform, can be accessed by anyone with an Internet connection, and supports almost instantaneous generation of new trees and table lists. …”
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    GRFT – Genetic Records Family Tree Web Applet
  15. 4835
    “…The purpose of the present study was to develop a useful program for the efficient detection and visualization of CNV regions that enables the manual exclusion of erroneous signals. RESULTS: A JAVA-based stand-alone program called Genovar was developed. …”
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    Genovar: a detection and visualization tool for genomic variants
  16. 4836
    “…AVAILABILITY: The Genometa program, a step by step tutorial and Java source code are freely available from http://genomics1.mh-hannover.de/genometa/ and on http://code.google.com/p/genometa/. …”
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    Genometa - A Fast and Accurate Classifier for Short Metagenomic Shotgun Reads
  17. 4837
    “…METHODS: We present G-Tool, a multiplatform (Java) open-source algorithm that analyzes an ensemble of fluorescent micrographs of satellite cell-derived colonies to provide quantitative and statistically meaningful metrics of myogenic potential, including proliferation capacity and propensity to differentiate. …”
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    Satellite cell heterogeneity revealed by G-Tool, an open algorithm to quantify myogenesis through colony-forming assays
  18. 4838
    “…The open specification enables push-button submission to gene variant databases (LSDBs) e.g., the Leiden Open Variation Database, using the Cafe Variome data publishing service, while VarioML bidirectionally transforms data between XML and web-application code formats, opening up new possibilities for open source web applications building on shared data. A Java implementation toolkit makes VarioML easily integrated into biomedical applications. …”
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    VarioML framework for comprehensive variation data representation and exchange
  19. 4839
    “…It was implemented in Java Swing as a complete open source graphical binning application available for download and further development (http://sourceforge.net/projects/metawatt).…”
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    The Binning of Metagenomic Contigs for Microbial Physiology of Mixed Cultures
  20. 4840
    “…Moreover, the target genes of known and novel miRNAs are predicted using the TargetScan algorithm, and the targets are ranked according to the confidence score. miRDeep* is an integrated standalone application where sequence alignment, pre-miRNA secondary structure calculation and graphical display are purely Java coded. This application tool can be executed using a normal personal computer with 1.5 GB of memory. …”
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    miRDeep*: an integrated application tool for miRNA identification from RNA sequencing data
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