Research Projects

 

Dr. Jun Ni participated in to many multidisciplinary research projects ins the past. These projects are classified into different groups as follows.

 

Medical and Healthcare Sciences

Technical Leader, Medical Imaging and Radiology Informatics (MIRI) (2010-2015)

Technical Leader, SoSE for Integrating Health Environment (SoSiHe) (2010-2015)

Technical Leader, Parallel Computing for Medical Imaging (PCMI) (2010-2015)

Technical Leader, Modeling of Biotransport in Biological Systems (MBBS) (2010-2015)

Technical Leader, Optical Imaging Tomography and Applications (OITA) (2010-2015)

Technical Leader, Stereological Analysis and Tumor Volume Metrics (SATVM) (2010-2015)

Technical Leader, Stereotactic Atlas for the Anatomic Topology (SAAT) (2010-2015)

Technical Leader, Coupled Diffusions for Image Enhancement (DDIE) (2010-2015)

Technical Leader, Nanomedicine and nanobiomedical imaging (NMNI) (2010-2015)

Technical Leader, Knowledge-based CAD for breast imaging (KCBI) (2010-2015)

Technical Leader, Digital Breast Tomosynthesis (DBT) and Molecular Breast Imaging (MBI) (2010-2015)

Technical Leader, Green HPC for Medical Imaging (GHMI) (2010-2015)

Technical Leader, Imaging Informatics in Space Medicine (IISM) (2010-2015)

Technical Leader, Medical Image Informatics Education (MIIE) (2010-2015)

Technical Leader, Grid-based Medical Imaging System (GMIS) (2009)

Technical Leader, Cyberinfrastructure for Medical Imaging Informatics (CMII) (2008)

Technical Leader, Medical Imaging Information System (MIIS) (2009)

Technical Leader, Research and development of distributed medical image displayer (dMID), a software to pass and display medical images on local multiple workstations or cross Internet, project members: Tao He, Xiaosen Jiang (2007)

Technical Leader, Medical imaging anisotropic diffusion enhancement, project members: Yongqiang Zhao (2007)

Technical Leader, Parallel local reconstruction for CT images, project members: Junjun Deng, Ge Wang, Lihe Wang (sponsored by NIH, 2006-07)

Technical Leader, Stereological volume measurement of cancer/tumor size for radiologists; this project is funded by Department of Radiology, College of Medicine, project members: Dr. Ge Wang, Dr. Simon Kao, and Lili Huang (2002-03)

Distributed and Grid Computing

Team Member, development of Compact Muon Solenoid (CMS) Physics Grid Tier-2 Center; this project is funded by University of Iowa Research Vice President for Research, project members: Boyd Knosp, and Shaowen Wang (project leader) (2002-04)

Technical Leader, Build Linux cluster for parallel computing using recycled PCs and building a distributed peer-to-peer system for internet computing using Mac with MacOSX, team members: Edward Tao He, James Hunsaker, and John Zhang (2003-05)

Team Member, establish and develop a Grid Research and educatiOn@ioWa (GROW) group that provides research services and leadership at The University of Iowa for conducting research, education, and outreach on Grid computing Shaowen Wang (project leader) (2003-05)

Project Technical Leader, Java-enhanced client-server distributed computing systems for Grid computing; the system called H3S system, project members: Edward He and Lili Huang (2003-05)

Team Member, scientific computing using GlobusToolkit TM for Grid computing, team member (2003-05)

Technical Leader, Grid computing in medical imaging (2004-06)
Technical Co-Leader, Parallel computing and Grid computing in nanostructure materials property predictions, project members: Dr. Shaoping Xiao, Dr. Shaowen Wang, and Wenyi Hou (2004-06)

Software Development

Technical Leader, Stereological volume measurement of cancer/tumor size for radiologists; this project is funded by Department of Radiology, College of Medicine, project members: Dr. Ge Wang, Dr. Simon Kao, and Lili Huang (2002-03)

Technical Leader, Stereotactic Atlas of the Macaca Mulatta Thalamus and Adjacent Basal Ganglia Nuclei, with Drs. I. A. Ilinsky, K. K. Ilinsky, and Boyd Knosp, Department of Anatomy, College of Medicine, University of Iowa (2001)

Data visualization and graphics

Technical Leader, 3-D visualization and animation of genetic data for disease, with Dr. V. Vieland and Dr. Mark Logue, Genetics Research Center, Department of Biostatistics, College of Public Health, University of Iowa (2001-03)

Technical Leader, 3-D visualization and animation of mesh-free and unstructured grids in soil mechanical systems, with Dr. J. S. Chen, Department of Mechanical Engineering, College of Engineering, University of Iowa (2000-01)

Senior Consultant, 2-D visualization of equiaxed crystal growth over the melt flow, with Dr. C. Beckermann, Department of Mechanical Engineering, College of Engineering, University of Iowa (1999-00)

Senior Consultant, 2-D visualization and animation of shock wave propagation in vehicle airbag, work with Dr. Barry Butler, Department of Mechanical Engineering, College of Engineering, University of Iowa (1996-97)

Computational Fluid Dynamics

Technical Leader, Multi-phase, multi-component based CFD modeling and simulations for dam breaking and river flooding in environmental study (2006)

Technical Leader, Lattice Boltzmann simulation of fluid in a grid computing environment; this project is funded by University of Iowa Internal Funding Program/Mathematical and Physical Sciences (MPSFP), Project members: Dr. Chinlong Lin, Dr. John Zhang and Tao He (2003-05)

Bioinformatics

Technical member, parallelism of long and short sequence comparison and protein similarity study (2006-2007)

Technical co-leader, Software development in genetic linkage (2005)

Team Member, HPC algorithms in bioinformatics, including DNA/RNA sequencing, searching, and mapping, genetic linkage software development (2003-05)

Virtual reality

Team Member, Developed visual reality applications using OpenGL and Cave library, participated in project of "Tele-immersive visualization of the environment," worked with Judy Brown and Marc Armstrong, founded by NASA No. COE/97-0104 (1998-99)

Statistical analysis

Technical Member: Parallel Implementation of Model of Response Accuracy and Response Time in Computerized Testing, University of Iowa, (2007)

Program Developer, Multi-variables regression of statistical data from NYSE, Department of Finance, College of Business, University of Iowa, (1999-00)

Senior Consultant, Statistical simulation of Iowa Test Basic Skill (ITBS), Department of Education, College of Education, (2000)

Campus-wide computing consulting

Project Leader, support the University of Iowa campus-wide HPC-related scientific and research computing. The project has several sub-projects, including providing services of scientific computing to campus researchers, coordinating HPC workshops, and helping faculty to apply for external grants. (2003-06)

HPC Application Group Leader, High performance computing and parallel computing; CT image processing in radiology; biomedical organ modeling; quantum mechanics and computational chemistry; bioscience, thermal science, geographical data visualization; image mapping, research data visualization, graphics using OpenGL (1996-01)

Off-site HPC technical liaison/or off-site consultant  between University of Iowa and National Center for Supercomputing Applications (NCSA), Cornell Theory Center (CTC) at Cornell University (Smart Node Program member), San Diego Supercomputing Center (SDSC), and Pittsburgh Supercomputing Center (PSC) (1994-00)

High performance computing

Technical Leader, Intel-Microsoft-UI collaborative project, a HPC  System dual-operated by Window Compute Cluster system configuration, sponsored by Intel and Microsoft, project members: Tao He, Richard Libby (Intel), Brain Hammond (Microsoft), Michael Zebrowski (X-ISS) (2006-2007)

Technical Leader, High performance computing and grid computing in modeling and simulations of transport phenomena during nano-structured materials processing (2005-2006)

Technical Leader, exploration of grid computing technology for scientific research such as various grid architectures and systems, project members: Boyd Knosp, and Shaowen Wang (2001-02)

Team Member, Participated in NSF project in "teaching parallel computing in parallel programming education," worked with Judy Brown and Dr. Ted Rus (PI), founded by NSF 9551183 (1997-98)

Research in transport phenomena in geological systems

Consultant, Sedimentation by dripping instability in viscous fluids in geophysical system, with Dr. G.W. Bergantz (PI), Department of Geological Science, University of Washington, Seattle, under award of NSF EAR-9508291 (1995-96)

Research in transport phenomena in materials processing

Member, new algorithms and numerical methods of HPC in simulation of transport phenomena during the processing of nano-structured materials and/or biomaterials, project members: Dr. Shaoping Xiao (project leader) and Dr. Ned Brown. (2003-04)

Member, developing a continuum model for transport phenomena during solidification of metal alloys; several important issues between two-phase model and continuum model of solidification have been clarified and model has been implemented into CFD programming for simulation. The study was financially supported by Department of Energy under DE-FG02-87ER13579, worked with Dr. Frank Incropera (PI), Purdue University, West Lafayette, IN (1993-94)

Member, Developed a two-phase CFD code to simulate sedimentation of dendritic crystals, solidification of a binary copper-aluminum alloy, supported by NSF CBT 8808888, and CTS-8957149, NASA, and ALCOA Technical Center, worked with Dr. C. Beckermann (PI), the University of Iowa (1992-93)

Member, Participated in research of solidification in metal alloys, and develop two-phase model of transport phenomena during solidification. The double convective and diffusive effects in dendritic crystal sedimentation, coupling between micro-macroscopic phenomena. The project was financially supported by NSF CBT 8808888 and CTS-8957149, NASA NCC3-289, and ALCOA Technical Center, worked with Dr. C. Beckermann (PI), University of Iowa (1987-92)

Larynx fluid flow in human speech pathology

Member, CFD study of unsteady flow in larynx of human glottal system, project was supported by NIDCD DC0083101A2, with Dr. Fari Alipour (PI), University of Iowa (1992-93)

Database design and management system

Technical Leader, International digital library for CT image analysis (7 international institutions and 11 departments), project members: Dr. Ge Wang, and Lili Huang (2002)

Technical Leader, Research and development in data structure and database system applied to system of business and management in petroleum industrial, Jun Ni, PI, Department of Power Machinery Engineering, Shanghai Jiao University, funded by Da-Gang Petrologic Industrials, with Y. Xia and J. Zhang, (1985-86)

Mechanical design of fluid driving systems

Member, Research and development in fluid couplings or torque converters used for marine and energy saving systems in mine industry, textile industry, and marine prolusion systems, with Prof. Z. Ying, and Prof. S.W. Zhu, Department of Power Machinery Engineering, Shanghai Jiao University (1984-85)

Preparation Projects

Emergent Scientific Modeling and Petascale Computing Implementations for the Simulations of Biotransport Phenomena in Nano-biophysical Systems
Ontological Data Mapping and Domain Modeling in Medical Imaging Informatics
Renovation of Core Facilities to Establish Managed Campus Research Data Center
Multiscale Modeling of Biotransports in Nanothermo/Chemo-radiation Therapies
Parallelism of Cone-Beam Katsevich Image Reconstruction on GPU Clusters with OpenCL
Acquisition of a High-end, Multi-core Supercomputer for Medical Imaging and Medical Informatics
Multiscale Modeling and Parallel Simulation of Nanotube-reinforced Polymer Composites
HPC-enabled multi-scale modeling and simulation of nanotube-based devices
Establish a Compact Muon Solenoid Grid-based Tier-2 heavy Ion Nuclear Physics Computing Center and Cyberinfrastructure
Multi-scale Modeling and Simulations of Biotransport Phenomena in Complex Biophysics Systems Using Petascale Computing and Medical Imaging
Medical Imaging and HPC based Multi-scale Model and Simulation of Biotransport in Biological and Physiological Systems
HPC-enabled multiscale modeling and simulation of nanotube-based devices
Multi-scale Modeling and Simulations of Biotransport Phenomena in Complex Biophysics Systems Using Petascale Computing and Medical Imaging
Cyber-enabled, Adaptive Computation Model for Simulation of Biotransport Phenomena using Computational Thinking
Adaptive Projection Regrouping and Grid Reformation for CT Image Reconstruction
Adaptive Hybrid Diffusion Model for Vessel Image Enhancement
Multiparametric MRI-based Computer Assistant System for Breast Cancer Diagnosis
HPC-Powered Models of Response Accuracy and Response Time in Computerized Testing
Simulation of Multiscale Nanocomposites Using Parallel Computing
Acquisition of Cloud Computing based HPC Resources for Across-Disciplinary Research and Education
HPC-based Bridging Domain Multiscale Method with the Implementation of Nano-Middleware
Synthesis and Modeling of Organic Bottlebrush Polymers with Hollow Cavities and Their Integration with Inorganic Nanomaterials
International Digital Libraries for CT-Image Analysis
Gravitational Effects on Nucleation and Crystal Growth of Mono-dispersed Particles during Biomaterials Processing

 

 

© Copyright 2014-2017  MediX Computing LLC, USA