Full list of projects

energy efficient computing (Green HPC)

• NAAICE (2022-2025), PI: Dr. Steffen Christgau, funded by BMFTR
• SeqAn@FPGA (2022-2025): SeqAn kernels on FPGA using SYCL (oneAPI), funded by BMFTR, partners: Prof. Knut Reinert Lab, Freie Universität Berlin, Intel Germany, Universität Köln

heterogeneous computing

• Intel oneAPI Center of Excellence (2022-2024), co-funded by Intel Corp.
• MANY-CORE HPC: Research Center for Many-core High-Performance Computing (2013-2024)
  (partial funding by INTEL Corp.)
• ORKA-HPC OpenMP for reconfigurable heterogeneous architectures
• HighPerMeshes: Domain-specific programming and target-platform-aware compiler infrastructure for algorithms on unstructured grids
• ENHANCE: Enabling Heterogeneous Hardware Acceleration using Novel Programming and Scheduling Models [2011-2013] (BMBF)
• Accelerator technology evaluation: MIC, GPGPU, CellBE, FPGA, SIMD
• Application acceleration
• Reconfigurable Computing

applications in distributed systems

• MoSGrid: Molecular Simulation Grid - eScience services for molecular simulations [2009-2012] (BMBF)
• PneumoGrid: eScience services for the treatment of chronic obstructive pulmonary disease [2009-2012] (BMBF)
• services@MediGRID: eScience services for biomedical applications (BMBF)
• MedInfoGrid: eScience services for medical data management (BMBF)
• MediGRID: eScience infrastructure for biomedical & life science (BMBF)
• GRIDCHEM: COST Action D37 - Grid computing in chemistry (EU)
• workflows in life science application scenarios

Berlin Center for Genome Based Bioinformatics (BCB)

• funded by BMBF (2001-2006)
• work on threading (fold recognition): 3D protein structure prediction from 1D sequences
• implementation of an parallel threading method (THESEUS)
• participation at CASP