NEW YORK, Dec 15 – Geneva Proteomics has selected Matrix Science’s Mascot protein identification software as the initial search engine for GeneProt's new Geneva-based proteomics factory, Matrix Science said Friday.
John Cottrell, director of Matrix Science, called Mascot “an industrial-strength protein identification package” that is suitable to the large-scale proteomics analysis GeneProt plans to undertake at its new facility.
Based in London Matrix Science considers the large-scale proteomics effort to be its target market, Cottrell told GenomeWeb. “GeneProt is leading the field in doing this on a large scale, but others will follow,” he said.
According to Cottrell, Mascot is ideal for high-throughput work on a large number of sequences with large data sets. The search engine matches data from mass spectrometers against protein or nucleic acid databases, and search results can be imported into a database for data mining processes.
In addition, the software uses probability-based scoring to avoid the risk of false positives.
Mascot can run on all mainstream computing platforms, including Tru64 Unix, Irix, Linux, Solaris, and Microsoft Windows. It is compatible with data from mass spectrometers manufactured by Agilent, Bruker, Finnigan/Thermoquest, Kratos/Shimadzu, Micromass/Waters, Applied Biosystems, and PE Sciex, among others.
Matrix Science, a small start-up with three employees, has licensing agreements with several leading suppliers of mass spectrometers for use of Mascot as part of an integrated instrument and processing package.
Cottrell said that 18 of the world’s top 30 pharmaceutical companies currently license the search engine for in-house use.
Last week Matrix announced a deal with BioVision of Hannover, Germany to jointly develop a new bioinformatics tool designed to analyze and process molecular data generated by any brand of mass spectrometer.