Groups, Labs, & Projects

Research Groups & Labs

SDSC's labs and groups offer a number of cyberinfrastructure services to scientists and engineers, helping them reach their goals quickly and more efficiently. The center's users can tap into a number of groups with expertise in areas such as data management, visualization and grid development. 

Advanced CyberInfrastructure Development (ACID)

ACID is engaged in research and development activities related to data cyberinfrastructure spanning the range from data acquisition, to data management, analysis, integration, mining, and visualization. The ACID group collaborates with interdisciplinary researchers to address their complex domain specific problems by leveraging cyberinfrastructure technologies.

High Performance Geocomputing Lab (HPGeoC)

HPGeoC is conducting research and development in high performance computing, data intensive computing, and grid computing to support geoscience applications, with particular emphasis on computational seismology. HPGeoC is in collaboration with Southern California Earthquake Center (SCEC) and other academic, industrial, and national lab partners to develop state-of-the-art techniques and applications supporting petascale earthquake computing.

Performance Modeling and Characterization (PMaC)

PMaC's mission is to bring scientific rigor to the prediction and understanding of factors affecting the performance of current and projected HPC platforms.

Scientific Applications Group

SDSC’s Scientific Applications Group engages in activities that enable researchers spanning the physical and biological sciences, engineering, social sciences and the arts to make the most effective use of high performance computing. The group collaborates on software development, optimization and parallelization projects in addition to performing independent research in a variety of domains. Work is funded primarily through grants from the National Science Foundation (NSF) in addition to awards from the National Institutes of Health (NIH), industry and private foundations. The group also benchmarks existing applications to determine optimal scaling behavior, evaluate the performance of emerging architectures and assess new programming languages and extensions.

Spatial Information Systems Lab

The Spatial Information Systems Lab conducts research and develops technologies and infrastructure that enable users to access, integrate, and manage spatial information. Application domains range from hydrology and environmental sciences, to neuroscience. The lab focuses on cyberinfrastructure for managing observational data, distributed information systems, web services and XML schemas for standards-based data interchange, spatial data integration and GIS, online data discovery, and visualization.

Structural Bioinformatics Group

The Structural Bioinformatics group leads the RCSB Protein Data Bank project at UCSD. The group's research and development activities are broadly centered around 3D structures of proteins and nucleic acids, and the integration of structural data with other domains such as Medicine, Genomics, Biology, and Drug Discovery.

Walker Molecular Dynamics Lab

The Walker Molecular Dynamics Lab's research encompasses the fields of computational chemistry, molecular biology, and high-performance computing. The lab is particularly interested in the development of efficient algorithms parallel and GPU accelerated computation of Quantum Mechanical and hybrid Quantum/Molecular Mechanical (QM/MM) techniques as well as improvements in the computational efficiency and accuracy of classical MM dynamics simulations. The research also focuses on the use of MM and QM/MM Molecular Dynamics algorithms for the determination of physical and chemical properties of protein based systems.

Research Projects

SDSC serves as a critical IT partner to large scale research projects in life sciences, geosciences, engineering and other disciplines. SDSC researchers collaborate on projects ranging from cellular signaling to earthquake effects to preserving large and irreplaceable data.

In addition to extending the reach of scientific accomplishments by providing high-performance hardware technologies and integrative software technologies SDSC's mission also includes providing deep inter-disciplinary research expertise to the community.

Biological Sciences

Biology Workbench
BIRN: Biomedical Informatics Research Network
CARTA: UCSD / Salk Institute Center for Academic Research and Training in Anthropogeny
CIPRES: Cyberinfrastructure for Phylogenetic Research
CYCORE: Cyberinfrastructure for Comparative Effectiveness Research
DELPHI: Data E-platform Leveraged for Patient Empowerment and Population Health Improvement
LIPID MAPS: LIPID Metabolites and Pathways Strategy
NCMIR: National Center for Microscopy and Imaging Research
NSG: Neuroscience Gateway
PDB: Protein Data Bank
UCSD-Nature Signaling Gateway

Computer Science & Technology

Big Data Benchmarking
HPWREN: High Performance Wireless Research and Education Network
Kepler Workflow Tool
OptIPuter
PRAGMA: Pacific Rim Applications and Grid Middleware Assembly
Rocks: Open Source Toolkit for Real and Virtual Clusters
SD-NAP: San Diego Network Access Point

Data & Knowledge Systems

iRODS: Rule Oriented Data Systems
SuAVE:Survey Analysis via Visual Exploration

Ecology

TEAM: Tropical Ecology Assessment & Monitoring Network

Engineering

SCEC: Southern California Earthquake Center
XSEDE: Extreme Science and Engineering Discovery Environment

Geosciences

CINERGI: Community Inventory of EarthCube Resources for Geoscience Interoperability
CyberGIS
OpenTopography Facility
UCSD Superfund Basic Research Program