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The Application Development Group assists MSI users by developing or collaborating in the development of software. Staff members have a wide range of software development experience. The group has skills in many programming languages, and has developed applications for computational proteomics, image processing, molecular simulation, web-based and mobile database interfaces, parallel computing, statistics, and many other areas. You may contact the Application Development Group to arrange for service by sending email to firstname.lastname@example.org, or by calling 626-0802 (8:30 a.m.–5:00 p.m. Monday through Friday).
Recent Software Development Projects
The National Center for Food Protection and Defense (NCFPD) was established by the Department of Homeland Security and headquartered at the University of Minnesota. The Application Development group at MSI is working to develop visualization tools, databases, and custom analytics to analyze the threat of economically motivated adulteration to our food supplies.
The University of Minnesota is developing a framework for the integration of tools for mass spectrometry (MS) proteomics research that builds on the community-driven analytical framework for genomic data analysis named Galaxy. This project will extend this framework by deploying and integrating a series of key software programs for MS-based proteomics data analysis, thus creating Galaxy Tool Modules for Proteomics which is Galaxy-P.
The Application Development group and the RISS staff at MSI, in partnership with the Biomedical Genomics Center (BMGC) and the Masonic Cancer Center Biostatistics and Informatics core, is leading the local implementation of the Galaxy framework from Penn State. This infrastructure effort is to create an integrated bioinformatics environment for genomics that supports both data analysis and research discovery. See more at: http://galaxy.msi.umn.edu/home or log in to use Galaxy at:https://galaxy.msi.umn.edu
Bell Museum Database
Since 1872, the Bell Museum has housed a multitude of state scientific collections. Now they are working with MSI to bring these natural history collections online for educators as well as the general public.
The Minnesota Congenital Heart Network (MCHN) facilitates multidisciplinary clinical research by building on existing collaborations between the University of Minnesota and Mayo Clinic across the disciplines of Clinical Medicine, Bioinformatics, and Biostatistics. MSI is helping develop tools that will be used by MCHN to search data across institutions.
TINT is a web-based graphical interface used for the University of Minnesota implementation of TROPIX. TINT allows users to search and share data, as well as use analytical tools. TINT can be used to submit jobs, view progress, and download results. TINT is used for processing all data generated by the Center for Mass Spectrometry and Proteomics (CMSP).
MSI staff have worked with professor Sven Ulrik-Gorr to create a web application and database to facilitate integration of data regarding Sjögren’s Syndrome. The Sjögren’s Syndrome Knowledge Base (SSKB)is open for use by all researchers and the public at large and includes genes and proteins linked to Sjögren’s. The intent of the application is to have a profound impact on future research in this disease, and ultimately stimulate the formulation and testing of new hypotheses and experimental approaches to investigations into Sjögren’s.