PRODUCTS
More new products online at
www.scientific-computing.com/products NEWPRODUCTS DATA ACQUISITION
Improved sequence analysis Strand Scientific Intelligence has released its Avadis NGS software application for next-generation sequence (NGS) analysis. Avadis NGS helps biologists visualise and perform downstream analysis on their NGS data, simply on a desktop computer.
Avadis NGS is an application focused on ChIP-SEQ, RNA-SEQ and genetic variation analysis that enables its users to assimilate large amounts of NGS data and ascertain deep biological insights using powerful statistics, interactive data visualisations in a state-of-the-art genome browser, and downstream analyses such as GO, pathways and GSEA. Avadis NGS is built on Strand’s award Avadis scientific intelligence platform, for data analysis and visualisation. According to the company, the Avadis platform has enabled rapid development of software for life and health sciences applications such as Agilent Technologies’ GeneSpring and powered breakthrough scientific discoveries by seven of the top 10 global pharmaceutical companies. The introduction of low-cost, high-throughput next-generation sequencing technologies has resulted in an exponential growth of data to be scrutinised for biological insights. However, exploring massive data sets and gleaning biologically-relevant and actionable insights has been a bottleneck in the sequencing process. Researchers have been challenged in attempting to master many different and complex tools and learn command line utilities to get even the most basic results, let alone having the capability
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to do this for thousands of data samples at a time.
www.strandsi.com
Application for next-gen sequencing and genomic profiling
Genedata has introduced its Genedata Expressionist Refiner Genome module, a data processing and analysis application for next-generation sequencing and genomic profiling. Featuring a flexible genomic browser capable of visualising terabytes of data, the product addresses whole genome analysis, including transcriptome, DNA methylome, gene regulation, copy number variations, and single nucleotide polymorphism (SNP). The Genomic Analysis Laboratory at the Salk Institute is providing feedback on the Expressionist Refiner Genome module focusing specifically on whole genome analysis including DNA methylation. Genedata Expressionist Refiner Genome is a unified system that bridges the gap between data generation and the ability to process, analyse and visualise massive amounts of genomic data. Genedata Expressionist is vendor- and technology-independent, maximising the value of high throughput genomics experiments in combinations such as next- generation sequencing. An enterprise solution built on client-server architecture, Genedata Expressionist integrates with existing IT infrastructures. Its proven workflow system for automation of recurrent processes provides for improved communication and knowledge sharing while increasing productivity. Additionally, Genedata
SCIENTIFIC COMPUTING WORLD DECEMBER 2010/JANUARY 2011
Expressionist’s audit trails and reporting capabilities ensure data integrity and facilitate FDA submissions.
www.genedata.com
PHYSICS AND ENGINEERING INSTRUMENTS
Information management in engineering enterprises Granta Design has announced a new release of Granta MI, the leading system for materials information management in engineering enterprises. Granta MI 4.0 focuses on key practical challenges faced by scientists, engineers, and designers in managing and using materials data. Meeting such challenges saves time, reduces risk, improves quality, and enables response to regulations in product design and development.
New features have been developed with input from users – for example, Granta consortia members such as Boeing, Emerson Electric, Eurocopter, GE, Honeywell, NASA, Rolls-Royce, and TRW Automotive. Key themes are: helping to manage and respond to changing information; tracking and using complex interrelationships between data; and tools for specialist data, such as the functional data often used to describe mechanical properties. New software tools and associated reference data extend capabilities in important application areas including: composites, restricted substances, steels, and medical devices. For composites materials, the company says, designing a database to store test and design data is difficult, because
these materials contain multiple components that are combined and processed in many different ways. The leading aerospace, defence, and energy enterprises in the Material Data Management Consortium (MDMC) have helped to define an effective and efficient database structure. This is now available to any Granta MI user. And a new Composite Design data module means that users can augment in-house data with data from the widely-respected NCAMP, AGATE, and CMH-17 projects, providing further support for composite design. For restricted substances, the company states that Granta MI helps organisations to identify the likely effect of regulations on product designs. A new tool provides alerts on any change to a relevant substance, material, or regulation, enabling proactive risk management. Another enhancement makes it easy for designers to navigate the relationships between substances, materials, and regulations – for example, to see which substances in a material are impacted by which regulations, and the nature of the impact. This supports materials choices that avoid costly problems with regulatory compliance or materials obsolescence. For steels, the software now enables simple access to two sets of European reference data on steels, fully-integrated with in- house data. The StahlDat SX data is a complete Register of European Steels (known as the ‘Stahl-Eisen- Liste’ in German), associated specifications, and temperature- dependant properties. StahlDat SX is licensed under a new agreement between Granta Design and the
www.scientific-computing.com
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