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Amit Majumdar

 

E-address	Postal Address
majumdar@sdsc.edu Phone: (858) 534-8356  Fax: (858) 534-5113	University of California San Diego San Diego Supercomputer Center 9500 Gilman Drive  La Jolla, CA 92093-0505

I am director of the Scientific Computing Applications group at the San Diego Supercomputer Center. The computational scientists, in the group, have expertise and experience in High Performance Computing (HPC) and have degrees in various domain sciences such as mechanical engineering, hydrology, biochemistry, nuclear engineering, and physics. The group's main activities are HPC research and development work in collaboration with domain science users of TeraGrid resources. This collaborative R&D effort allows SDSC's experienced computational scientists to work with domain scientists regarding algorithm development, code optimization, code profiling/tuning, mathematical library implementation, new programming model implementation etc.

I am an Associate Professor in the Department of Radiation Medicine and Applied Sciences , UCSD . Our collaborative interdisciplinary research involves application of HPC for adaptive radiation therapy. We are specifically exploring use of GPUs for real-time re-planning where we need to solve three computationally intensive tasks: patient modeling based on deformable image registration, radiation transport simulation and dose calculation using Monte Carlo methods, and treatment optimization as a large scale optimization problem.

Education

I received B.S. degree in Electronics and Telecommunication from the Jadavpur University , Calcutta, India, and Ph.D degree in the interdisciplinary program of Nuclear Engineering and Scientific Computing from the University of Michigan . My dissertation was done under the supervison of Prof. William R. Martin. Before joining the SDSC I worked for a year at the Engineering and Computer Center at the Ford Research Laboratory in Dearborn, Michigan.

Current Funded Projects

1. PI of a NSF funded Advances in Biological Informatics (ABI) grant for creating a neuroscience gateway that will allow neuroscientists to access and utilize High Performance Computing (HPC) resources for compuational modeling of cells and networks. This will enable computational neuroscience research by eleminating the administrative and technical barrier for accessing HPC resources and thus democratize participation in science by all including historically underrepresented groups who find it difficult to access supercomputers. This is a collaborative project with Ted Carnevale being the PI from Yale Univerisity. Maryann Martone (Neuroscience, UCSD) is a Co-PI from UCSD. Other UCSD and SDSC staff are Subha Sivagnanam (SDSC), Anita Bandrowski (Neuroscience, UCSD), Vadim Astakhov (Neuroscience, UCSD), Kenneth Yoshimoto (SDSC). Link to NSF grant abstract page .
2. Co-PI of an Air Force (Air Force Office of Scientific Research - AFOSR) funded grant (2011 - 2015) for Dynamic Data Driven Application System (DDDAS) focusing on computational steering of large-scale structural systems through advanced simulation, optimization and structural health monitoring. PI is Yuri Bazilevs, Structural Engineering, UCSD and other Co-PIs are A. L. Marsden (Dept. of Mechanical and Aerospace Engr, UCSD), F. Lanza di Scalea (Structural Engr. Dept., UCSD), and Mahidhar Tatineni (SDSC).
3. Co-PI of a NSF (OCI) PRAC grant (2009-2013) for Petascale computations for complex turbulent flows. PI i s P.K Yeung (Georgia Tech) and other co-PIs are Robert Moser (U. Texas), James J. Riley (U. Washington) and Dmitry Pekurovsky (SDSC). Link to NSF grant abstract page
4. Co-PI of a NSF (OCI) funded PRAC grant (2010-2013) for petscale kinetic simulation of the magnetoshpere on the Blue Waters machine at NCSA. PI of this project is Homa Karimabadi (UCSD, Sciber Quest), and another Co-PI is Keven Quest (UCSD). Link to NSF grant abstract page
5. Co-PI of a NSF (OCI) funded collaborative PetaApps project (2009-2013) on petascale kinetic simulations of the magnetosphere. PI is Homa Karimabadi (UCSD) and the other co-PIs are Kevin Quest, Yuri Omelchenko (UCSD); other PI: Umit V. Catalyurek (Ohio State University). Mahidhar Tatineni (SDSC) is a senior personnel this project and Amit Chourasia (SDSC) is involved in this project. Link to NSF grant abstract page
6. Co-PI of a UCLab funded project (2009-2012) on developing optimized on-line adaptive therapy for radiation treatment of cancer using high performance computing. This is in collaboration with the PI of the project Steve Jiang (Director of Research, Dept of Radiation Oncology, UCSD) ; A.J. Mundt, MD, (Chairman, Dept of Radiation Oncology, UCSD); Todd Pawlicki (Director of Medical Physics and Clinical Operations, Dept of Radiation Oncology, UCSD), Dong Ju Choi (SDSC), and Mike Holst (Mathematics Dept, UCSD). Other collaborators are Marie-Anne Descalle (LLNL) and H. Edwin Romeijn (Department of Industrial and Operations Engineering, University of Michigan).
7. PI of a NSF (OCI) funded collaborative STCI project (2009 - 2012) on toplogy-aware MPI communication and scheduling for petascale systems. Other PIs and co-PIs are D.K. Panda (Ohio State University), Karl Schulz and Bill Barth (Texas Advanced Computing Center, U. Texas). Yifeng Cui, Mahidhar Tatineni, and Dmitry Pekurovsky (all from SDSC) are senior personnel in this project. Link to NSF grant abstract page
8. PI of a NSF (OCI) funded collaborative PetaApps project (2007 - 2012) on High Reynolds Number Turbulence Simulation. Other PI and Co-PIs are P.K. Yeung (Georgia Tech), Dmitry Pekurovsky (SDSC), David Bader (Georgia Tech), Robert D. Moser (U. Texas), James J. Riley (U. Washington), Stephen B. Pope (Cornell). Link to NSF grant abstract page
9. PI of a Microsoft gift grant (2008 - present) project to port scientific applications on a Windows HPC Server 2008 cluster. Mahidhar Tatineni, Ross Walker, Larry Diegel, Don Thorp and Dong Ju Choi (all from SDSC) are involved in this project.

Past Funded Projects

1. Co-PI of a NSF (OCI) SGER grant ( 2009 - 2011) on parallel 3D FFT library enhancement developed by Dmitry Pekur ovksy, SDSC - PI of the award. Link to NSF grant abstract page
2. PI of a SDSC internal funded project (2010 - 2011) on computational framework for cardiovascular surgical procedures. Other Co-PIs are Alison Marsden (Dept. of Mechanical and Aerospace Engr, UCSD), Yuri Bazilevs (Dept. of Structural Engr, UCSD), Mahidhar Tatineni (SDSC). Postdoc Sethuraman Sankaran and graduate student Kenneth Benner (Dept. of Structural Engr, UCSD) are involved in this project.
3. Co-PI of a NSF (OCI) PRAC grant (2009-2011) for Petascale computations for complex turbulent flows. PI is P.K Yeung (Georgia Tech) and other co-PIs are Robert Moser (U. Texas), James J. Riley (U. Washington). Link to NSF grant abstract page
4. PI of a NSF (CISE) funded collaborative HECURA project (2008 - 2010) on improving one-sided MPI communication for ultra scale HPC machines. Other PIs are D.K. Panda (Ohio State University) and Karl Schulz (Texas Advanced Computing Center, U. Texas). Yifeng Cui and Dmitry Pekurovksy (both from SDSC) are senior personnel in this project and Mahidhar Tat ineni (SDSC) is involved in this project. Link to NSF grant abstract page
5. NSF (Engr) funded educational project through which we are providing Cyberinfrastructure experiences ( Cyberinfrastructure Experiences for Graduate Students (CIEG-2007) , CIEG-2008 ) for graduate students.
6. Co-PI, of an NSF ITR funded project (2004-2007) on image guided neurosurgery (PI Kim Baldridge, SDSC/U.Zurich; Co-PI: Maryann Martone (UCSD), Simon K. Warfield, Brigham and Women's Hospital, Harvard Medical School; Collaborators: Dong Ju Choi, SDSC, and Petr Krysl, Structural Engineering, UCSD.). This project is in collaborations with the Computational Radiology Laboratory at the Brigham and Women's Hospital, Harvard Medical School. Link to NSF grant abstract page
7. PI of an NSF (OCI) funded collaborative SGER project (2006 - 2007) on analyzing performance and scaling of SCEC AWM code (PI: Tom Jordan, USC, Senior Personnel: Yifeng Cui, SDSC). Link to NSF grant abstract page

Publications

Professional Organization Membership