GenoLogics’ Proteomics Solution Now Includes Automated Informatics

GenoLogics Life Sciences Software Inc.(GenoLogics) has announced key enhancements to its Proteus™ software solution.

GenoLogics’ Proteus solution now includes Automated Informatics, a technology framework that enables bioinformatics pipelining and analytics automation.

This Automated Informatics framework is designed to empower proteomics researchers to fully automate their analysis pipelines after mass spectrometry integration; convert the data to open data formats, integrate to multiple search engines, and validate, quantify and analyze data generated by applications downstream of the mass spectrometer.

Proteus enhancements also include:

- The integration with the Institute for Systems Biology’s Trans Proteomic Pipeline (TPP), automating and synchronizing the data hand-off between the LIMS and the TPP bioinformatics pipeline, and facilitating a continuous exchange of data between the TPP modules and Proteus;

- The ability to handle electronic sample sheets, which are editable by end users, can be exported for clinical systems and sample bio-repositories and can integrate imported data with existing projects and experiments;

- The continued development of the software based on open data standards, encouraging the use of Proteus as a central hub to tie together lab information and data management with third-party commercial and open-source software.

Bruce Pascal, BioInformatician for the proteomics program, at the Scripps Research Institute in Florida, commented, "We are looking forward to receiving the latest version of Proteus from GenoLogics, as it will simplify the lab management of experiment data, software, and instrumentation used in our research."

"We are particularly excited about the new functionality that Proteus will provide with the integration of the fully automated TPP pipeline which will allow us to focus on the science problem rather than worrying about the workflow process."

"We could realize a significant increase in lab productivity, while maintaining the high standards for data accuracy, traceability and experiment reproducibility enabled by Proteus."

Through its relationship with the Institute for Systems Biology, GenoLogics brings significant added value to the ISB’s Trans Proteomic Pipeline (TPP) by automating the bioinformatics pipelining workflow which is enabled by its Automated Informatics framework.

"We saw the need for better protein identifications from mass spec data in the general proteomics research community and we realized that the ProteinProphet™ and PeptideProphet™ open source bioinformatics applications from the ISB was the gold standard," commented James DeGreef , VP of Product Management. 

"Since ProteinProphet™ and PeptideProphet™ include algorithms for peptide hit statistical validation and protein inference mechanisms, integrating to the ‘Prophets’ was a natural enhancement to Proteus."

"We are now in the process of integrating other bioinformatics applications and open source software tools to automate more analytics workflows in proteomics and beyond, that will also utilize our new Automated Informatics framework."

"Conversion to open mass spec formats (such as mzXML) and automating multiple protein search engines is enabled through the Automated Informatics framework and is available in the latest version of Proteus."

GenoLogics will demonstrate the latest version of Proteus with Automated Informatics and the TPP at the upcoming ASMS Conference on Mass Spectrometry, May 28 - June 1, in booth #95.