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Director of SDSC's Data Enabled Scientific Computing (DESC) divison.
DESC division is responsible for the following:
High Performance Computing Systems group lead by Christopher Irving
User Services group lead by Mahidhar Tatineni
Scientific Computing Applications group lead by Bob Sinkovits
Scientific Visualization group lead by Amit Chourasia
SDSC's XSEDE program is coordinated from the DESC divison by Nancy Wilkins-Diehr, Co-PI of the XSEDE program and PI of the Science Gateways Community Institute project
Advanced Technology Lab (ATL) lead by Pietro Cicotti
I am an Associate Professor in the Division of Medical Physics and Technology, Department of Radiation Medicine and Applied Sciences , UCSD . Our collaborative interdisciplinary research involves
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.
I received B.S. degree in Electronics and Telecommunication from the Jadavpur University , Calcutta, India, M.S. degree in Nuclear Engineering from Idaho State University 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
Current Funded Projects
- PI of a NIH, National Institute of Biomedical Imaging and Bioengineering, funded project (2017 - 2021); this has multiple PIs - Scott Makeig (contact PI), Arnaud Delorme, Schwartz Center for Computational Science. Proposal title "The Open EEGLAB Portal Project" is a joint proposal between EEGLAB project and the Neuroscience Gateway (NSG) project; it involves processing of multimodal imaging data and integration of EEGLAB with NSG. Subha Sivagnanam, SDSC and Robert Buffington, Zeynep Akalin, and others from the Schwartz Center are involved in this project. Link to NIH abstract page.
- Co-PI of a NSF (OAC) funded project (2017 - 2020) with Satish Nair, PI, Prasad Calyam, Co-PI, David Bergin Co-PI from University of Missouri-Columbia. This proposal will result in development of cyberinfrastructure-based training modules for data-intensive neuroscience learning and research. Link to NSF abstract page.
- PI of a subcontract (2017 - 2019) from DOD HPCMP's User Productivity Enhancement, Technology Transfer and Training (PETTT) Program. Co-PI on this project are Pietro Cicotti, Manu Shantharam, and Mahidhar Tatineni. As a part of this project we will develop and implement parallel I/O technologies which will be available as a part of the Naval Computational Science Library.
- PI of a NSF (CCF) funded collaborative project (2016 - 2019) with DK Panda (Ohio State)as the lead PI, and Bill Barth, the PI from TACC. Co-PIs of this project are Mahidhar Tatineni (SDSC), Karen Tomko (Ohio State), Hari Subramoni (Ohio State), Carlos Rosales-Fernandez (TACC), Jerome Vienne (TACC). This research involves high-performance and scalable communication mechanicsms for next generation Dense Many-Core architectures and how applications that use the MPI+X programming models are impacted in terms of performance. Link to NSF abstract page.
- PI of a subcontract (2016 - 2017) from DOD HPCMP's User Productivity Enhancement, Technology Transfer and Training (PETTT) Program. Co-PI on this project are Pietro Cicotti, Mahidhar Tatineni, Dongju Choi and senior personnels is Manu Shantharam. As a part of this project we are looking into new I/O technologies and softare for scientific applications of interest to DOD.
- PI of a NSF Division of Biological Infrastructure (DBI) funded grant (2015 - 2018) on implementing REST services utilizing the Neuroscience Gateway for computational neuroscientists. This is collaborative proposal between the San Diego Supercomputer Center (UCSD), Yale University and University College London. The NSG-R will allow ondemand, automated communication between neuroscience community projects such as Open Source Brain (OSB), ModelDB, and Neuroscience Information Framework (NIF) and HPC resources via NSG. It will also enable access to NSG via REST services from individual researcher's desktop or laptop. Subha Sivagnanam (SDSC) is the co-PI from SDSC, and Ted Carnevale from Yale is the PI of the Yale award. Prof. Angus Silver, from University College London, is the PI of the BBSRC, UK award and research scientist Padraig Gleeson (UCL) is a collaborator of this research project. SDSC NSF abstract , Yale NSF abstract , and BBSRC, UK abstract page.
- PI of NSF (IIS) funded BIGDATA project (2014 - 2017), between Ohio State (lead institution) and SDSC, on bringing HPC technologies (multi/many-core architectures, RDMA-enabled networking, NVRAMs and SSDs) and BigData middleware (Hadoop, Hbase and Spark) into a 'convergent trajectory'. DK Panda (Ohio State) is the lead PI and Mahidhar Tatineni (SDSC) is a Co-PI on this project. Link to NSF abstract page.
- Co-PI of a NSF ACI division funded SI2-SSI project (2013 -2018), between
Indiana University (lead institution), SDSC, and Univ. Texas Health Science Center San Antonio, on science gateway as a platform (SciGaP). SciGaP will create a set of hosted services which can be easily adopted by other gateways from various domain sciences. Mark Miller is the SDSC PI. Other PI, Co-PIs are Marlone Pierce (IU, lead PI), Suresh Marru (IU, Co-PI), and Borries Demeler(PI from UTHSCSA). Link to NSF abstract page.
Past Funded Projects
- Subcontract (consultant) on a NSF funded ACI grant (2014-2016) to U. North Carolina for developing mechanisms for mapping collaborations onto the new type of dynamically configurable, deeply networked institutional cloud infrastructure for data. PI is Ilya Baldin, RENCI, UNC. Link to NSF abstract page.
- PI of an Engility Corporation grant for student project (Summer, 2016). The project involved application of data analytics methods on I/O performance data of users' jobs to various file systems such as NFS, node local SSDs, Lustre parallel file system.
- PI of NSF (CCF) funded SHF collaborative project (2012 - 2016), between Ohio State (lead institution), Texas Advanced
Computing Center (TACC), and SDSC, on unified runtime for supporting hybrid programming models on heterogeneous
architecture; Yifeng Cui (SDSC) is a Co-PI on this project. Other PIs and Co-PIs are DK Panda (Ohio State), Karl Schulz (TA
CC), Bill Barth (TACC).
Dmitry Pekurovsky, Robert Harkness, Mahidhar Tatineni (all from SDSC) are senior personnel in this project.
Link to NSF abstract page
- PI of a NSF funded Division of Biological Infrastructure (DBI) grant (2012 - 2016) for
creating a neuroscience gateway that will allow neuroscientists to access and utili
ze High Performance Computing (HPC) resources for compuational modeling of cells and networks. This will enable computation
al neuroscience research by eleminating the
administrative and technical barrier for accessing HPC resources and thus democratize participation in science by all inclu
ding historically underrepresented groups who find it difficult to access supercomputers. This is a collaborative
project between SDSC (lead institution) and Yale; Ted Carnevale being the PI from Yale Univerisity. Maryann Martone (Neuros
cience, 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 (SDS
Link to NSF grant abstract pag
- PI of a NSF (OCI) funded SI2 collaborative project (2012 - 2016), between Ohio State (lead institution), Texas Advance
d Computnig Center (TACC), and SDSC, on comprehensive performance tuning framework for the MPI stack. Other
PIs and Co-PIs are DK Panda (Ohio State), Bill Barth (TACC), Tommy Minyard (TACC). Dongju Choi, Mahidhar Tatineni (SDSC) ar
e senior personnel in this project. Link to NSF abstract page.
- 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, Str
uctural 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).
- PI of an Intel Parallel Computing Center (IPCC) at SDSC. Other PIs are RossWalker and Andrea Goetz. As a part of this project we are looking into optimizing molecular dynamics and neuroscience applications on many- and multi-core processors. Link to IPCC page for this project.
- PI of a SDSC internal funded project (2012 - 2013) titled, "In-site Visualization, Data Mining and Computational Steering on t
he Gordon Machine". Co-PI is Mahidhar Tatineni from SDSC. Non-SDSC collaborators are Homa Karimabadi (UCSD), Burlen Loring (LBNL),
William Daughton (LANL), Patric O'Leary (Kitware Inc.), and Berk Gevici (Kitware, Inc.).
- Co-PI of a NSF (OCI) PRAC grant (2009-2013) for Petascale computations for complex turbulent flows.
Lead 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
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. Lead PI of this
project is Homa Karimabadi (UCSD, Sciber Quest), and another Co-PI is Keven Quest (UCSD). Link to NSF grant abstract page
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 Unive
rsity). Mahidhar Tatineni (SDSC)
is a senior personnel this project and Amit Chourasia (SDSC) is involved in this project. Link to NSF grant abstract page
- 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 Industr
ial and Operations Engineering, University of Michigan).
PI of a NSF (OCI) funded collaborative STCI project (2009 - 2012) on toplogy-aware MPI communication and scheduling for
petascale systems. This is a collaborative project between Ohio State (lead institution), TACC and SDSC.
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
PI of a NSF (OCI) funded collaborative PetaApps project (2007 - 2012) on High Reynolds Number Turbulence Simulation.
This is a collaborative project between Georgita Tech (lead institution), University of Texas, Austin and University
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
PI of a Microsoft gift grant (2008 - 2011) project to port scientific applica
tions 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.
Co-PI of a NSF (OCI) SGER grant ( 2009 - 2011) on parallel 3D FFT library enhancement developed by Dmitry Pekurovsky
, SDSC - PI of the award. Link to
NSF grant abstract page
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
- Co-PI of a NSF (OCI) PRAC grant (2009-2011) for Petascale computations for complex turbulent flows. Lead 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
- PI of a NSF (CISE) funded collaborative HECURA project (2008 - 2010) on improving one-sided MPI communication for ultra
scale HPC machines. This is a collaborative project between Ohio State (lead institution), TACC and SDSC. 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
- NSF (Engr) funded educational project through which we are providing Cyberinfrastructure experiences (
Cyberinfrastructure Experiences for
Graduate Students (CIEG-2007) , CIEG-2008 ) for graduate students.
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
- PI of an NSF (OCI) funded collaborative SGER project (2006 - 2007) on analyzing performance and scaling of SCEC AWM code (Other PI: Tom Jordan, USC (lead institution), Senior
Personnel: Yifeng Cui, SDSC). Link to NSF grant abstract page
Professional Organization Membership
Society for Industrial and Applied Mathematics (SIAM)
Institute of Electrical and Electronics Engineers (IEEE)
Americal Physical Society (APS)
Organization for Computational Neuroscience (OCNS)