BioNumerics version 6.5 released - Focus on NextGen sequencing

Applied Maths NV today announces the release of version 6.5 of its flagship software suite BioNumerics. The BioNumerics software provides a universal platform for databasing and analysis of 1D patterns, 2D gels, phenotype arrays, and DNA/protein sequences. The software provides powerful databasing, integrated networking and a wide range of data mining, clustering, identification, and statistical applications. BioNumerics is designed for lab-wide databasing and analysis of biodata in laboratories of any size and is in use in thousands of public and private research sites worldwide. The software is referenced in more than 3,400 peer-reviewed scientific papers. In addition, BioNumerics and its server application 'BioNumerics Server' are the cornerstones for numerous national and international research projects and epidemiological surveillance networks. PulseNet (, a worldwide surveillance network for foodborne bacterial pathogens is the foremost achievement with BioNumerics, connecting many hundreds of public health labs in the United States, Canada, Europe, Latin America, the Middle East, and Asia Pacific.

The highlight of BioNumerics version 6.5 is its new Power Assembler, a tool for preprocessing and assembling next generation sequencing data. Power Assembler accepts data from major platforms such as Roche/454 and Solexa/Illumina and allows the user to build pipelines for realizing the most diverse preprocessing and assembly needs. Power Assembler has been designed to combine user-friendliness with maximal flexibility and performance. A set of predefined “actions” delivered with the software makes it possible for beginning users to easily construct a basic assembly pipeline. Power Assembler integrates seamlessly with other BioNumerics applications such as pairwise and multiple alignments, chromosome comparisons and the new chromosome annotation tool, described below.

With a new application for automated chromosome annotation, the next step towards a fully integrated sequence analysis platform has been realized. Unannotated or partially annotated sequences can be annotated against one or multiple reference chromosomes. The application contains a number of useful visual inspection and analysis tools, such as showing per ORF all possible choices according to feature identity and chromosome synteny, clustering similar features according to identity, etc.

In response to a growing demand for integrated graphical analysis and reporting, a new chart and statistics tool has been implemented. The interface uses robust and logical concepts to guarantee that most if not all charting and plotting needs can be answered. While not less than 16 major types of charts are available, a number of optional properties can be used to provide additional information with each chart type. In order to achieve maximal flexibility, data properties can be converted into new derived properties using operators.

In addition to these new applications, BioNumerics version 6.5 contains a large number of new interface and database enhancements.

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