Who We Are

Center for Computational Mass Spectrometry

Welcome to the Center for Computational Mass Spectrometry (CCMS), established to provide new computational proteomics technologies for use in the biomedical research community. CCMS is a part of the Biomedical Technology Research Resource (BTRR) Program at the National Institute of General Medical Sciences (NIGMS), and supports the BTRR mission ‘to create critical, often unique technology at the forefront of their respective fields and apply them to a broad range of basic, translational and clinical research’.

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Our Mission

Unique Algorithmic Technologies

The goal of CCMS is to bring the unique algorithmic technologies to mass-spectrometry and to build a new generation of open access software tools to support both new developments in mass-spectrometry instrumentation and the emerging applications.  In particular, CCMS focuses on emerging approaches that were not even possible in the past and that bridge not only different areas of mass-spectrometry, but also diverse areas like genomics and proteomics.

Research areasProjects
MolecularNetworks

What We Do

Developing Advanced Computational Methods

Proteomics has entered the stage when the lack of adequate computational tools has become the key bottleneck for many biological applications. Moreover, while recent breakthroughs in MS instrumentation have a potential to solve the biological problems that were beyond the reach of the existing technologies, the computational techniques for many of these new approaches are in their infancy.

CCMS develops advanced computational mass spectrometry methods for the characterization of proteins and peptides that are relevant to human health and disease, specifically ones with great biomedical importance such as antibodies, antibiotics, cancer-specific aberrant proteins, histones, and other therapeutic targets.

Software toolsPublic resources

Contacts

CCMS Leadership:

Pavel Pevzner

Principal Investigator

(858) 822-4365 Email Pavel

Nuno Bandeira

Principal Investigator

(858) 534-8666 Email Nuno

Vineet Bafna

Principal Investigator

(858) 822-4978 Email Vineet
The CCMS Team

From Left to Right: Nuno Bandeira (Spectral Networks, Multiplexed Spectra, ProteoSAFe, and MassIVE), Pavel Pevzner (Antibiotics Discovery, Universal Proteomics Tools, and Top-Down Proteomics), Ingolf Krueger (ProteoSAFe), and Vineet Bafna (Proteogenomics and Top-Down Proteomics) direct algorithmic and software developments and the Center.

For technical assistance and general questions, please email ccms@proteomics.ucsd.edu. We will get back to you as soon as humanly possible.

All CCMS People

Feedback

Comments & Suggestions

We invite your comments and suggestions, which will help the Resource to be of maximum value to the community it serves.

For technical assistance and general questions, please email ccms@proteomics.ucsd.edu. We will get back to you as soon as humanly possible.