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Category Genomics>Gene Expression Analysis/Profiling/Tools Abstract InforSense BioSense is a specialized extension of the InforSense Platform for bioinformatics data integration and analysis. Programming-free development allows expert and non-expert users alike to design, implement, execute and deploy novel bioinformatics solutions rapidly and easily. InforSense BioSense provides access to a comprehensive collection of bioinformatics data sources and tools using the InforSense analytical workflow approach. The data sources and tools become available as components via a drag-and-drop visual interface. Each component has an intuitive visual interface for setting its parameters and can be composed with other components into an analytic workflow to execute data integration and analysis tasks.
environment for designing and executing scalable, high performance bioinformatics solutions such as sequence analysis, proteomics, gene expression/microarray informatics and remote database annotation. Product uses industry-standard sequence file formats to allow bioinformatics applications such as Basic Local Alignment Search Tool (BLAST) and CLUSTALW to be seamlessly integrated with tools such as the European Molecular Biology Open Software Suite (EMBOSS) suite and remote data sources including National Center for Biotechnology Information (NCBI) and Sequence Retrieval System (SRS). Import/Export Components - 1) Support for importing and processing protein and nucleotide sequence data in text or databases: FASTA, National Genetic Sequence Data Base (GenBank)/Pept, European Molecular Biology Laboratory (EMBL), SwissProt (Protein knowledgebase), BLAST Databases; 2) Support for importing and processing gene expression/microarray data sources including: Text files, Relational Database Management Systems (RDBMS), Bioconductor supported data formats. Product also offers the ability to combine table-based operations with in-situ processing of very large [Giga-Byte (GB)-sized] sequence files in their original format and location for optimal performance. Microarray Analysis Components - Offers an extensive set of data normalization and analysis methods including: 1) Normalization: [Li- Wong, Robust Multiarray Average (RMA)], custom procedures and 3rd- party systems such as R/Bioconductor (via the R plugin) can be applied in any combination; 2) Multivariate Analysis: Regression, Principal Components Analysis (PCA), Partial Least Squares (PLS); 3) Clustering: K-means, hierarchical and Expectation-Maximization (EM); 4) Predictive Modeling: Bayesian, Decision Trees, Decision Rules, Neural Networks (NN) and Support Vector Machine (SVM).
and Ingenuity Pathway Analysis (see G6G Product Number 20017) tools for adding context to gene expression analysis and sequence analysis. Remote Annotation Components - Built-in access to common resources for nucleotide and protein data, plus annotations and pathway information: NCBI and NCBI web services, SwissProt, EMBL, Human Genome Organization (HUGO), Protein Data Bank (PDB), Kyoto Encyclopedia of Genes and Genomes (KEGG), Medical Literature Analysis and Retrieval System Online (Medline), SRS (via the SRS plugin). A generic Web Services plugin is also available for integration with new data sources. Sequence Analysis Components - Access to standard sequence analysis tools for sequence similarity searches, multiple alignment and annotation including secondary structure prediction, translation, gene finding, composition analysis, primer prediction and motif searching Supported programs include: BLAST, CLUSTALW, EMBOSS, SIM4, MUMmer, tRNASCAN. Additional functionality can be added using the InforSense Software Development Kit (SDK) and Command-line plugins, thus offering complete flexibility to the user. Interactive analysis through interactive chart visualization - 1) InforSense BioSense supports visualizers and editors for: Sequence annotations and alignments, 3D structures, Ontologies and Phylogenies, PostScript, Dotplots and protein properties; 2) Access to a extensible range of InforSense Platform interactive visual data interpretation components linked with 2D and 3D visualization tools. These include: Box plot, Bar chart, Bin plot, Pie chart, Parallel plot, Scatter plot, Venn diagram, Table Viewer, Dendrogram, Hyperbolic Tree, ROC Plot, Confusion matrices, Association rules plot.
annotation browser, dendrogram viewer, and interactive cluster browser. Extensibility - It provides an extensible framework for designing and executing scalable, high performance bioinformatics solutions: 1) Rapid integration of new methods and third party tools via the InforSense SDK; 2) Extended BioJava Application Programming Interface (API) for domain-specific data structures such as sequences and alignments; 3) Additional plugins available to interact with NCBI web services, SRS, R/Bioconductor and Matlab; 4) Interfaces to popular scripting languages such as Practical Extraction and Report Language (Perl) and [Aho, Weinberger, Kernighan (AWK) a Pattern Scanning Language] allowing users to develop their own components (using the Command-line plugin); 5) Integration with Relational Databases; 6) Full access to InforSense’s generic structured data processing, multivariate analysis and text mining; 7) Full bidirectional communication with Spotfire DecisionSite. Cross Domain Applications - Products full integration with InforSense ChemSense and TextSense provides users with the software infrastructure and tools to integrate transform and analyze data from diverse and cross-domain data sources.
of analytic applications to unlock your organization’s expertise. Web-Based Deployment - InforSense BioSense workflows are deployed as end-user applications via a portal interface. These same workflows can be executed as web services, via a command line, or the InforSense Server API ensuring consistent enterprise wide dissemination of applications.
platform based on a J2EE architecture. The InforSense Platform has been validated on a wide range of platforms and operating systems. Currently supported platforms include: 1) Client: Microsoft Windows 2000/XP and Mac OS X Tiger (PowerPC architecture); 2) Server: Microsoft Windows 2000/XP, Mac OS X Tiger (PowerPC architecture), Linux (Intel architecture), Solaris 8 (SPARC architecture). Note: As an integrative analytics platform, the InforSense Platform co- ordinates the execution of software tools supplied by third parties installed on different machines, such tools may have their own systems requirements. Such tools include Perl, shell scripts, R/BioConductor and MATLAB programs. Manufacturer Home office; see web site for international locations.
Colet Court 100 Hammersmith Road London, W6 7JP United Kingdom Tel.: +44 (0) 20 8237 8440 Fax: +44 (0) 20 8237 8441 information@inforsense.com
Price Contact manufacturer G6G Product Number 20033 G6G Manufacturer Number 101430 |
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