Process simulation of complex biological pathways in physical reactive space and reformulated for massively parallel computing platforms

N Ganesan, J Li, V Sharma, H Jiang… - … /ACM transactions on …, 2015 - ieeexplore.ieee.org
Biological systems encompass complexity that far surpasses many artificial systems.
Modeling and simulation of large and complex biochemical pathways is a computationally …

A-MapCG: an adaptive MapReduce framework for GPUs

L Liu, Y Zhang, M Liu, C Wang… - … Architecture, and Storage …, 2017 - ieeexplore.ieee.org
The MapReduce framework proposed by Google to process large data sets is an efficient
framework used in many areas, such as social network, scientific research, electronic …

Compile-time automatic synchronization insertion and redundant synchronization elimination for GPU kernels

L Liu, M Liu, CJ Wang, J Wang - 2016 IEEE 22nd International …, 2016 - ieeexplore.ieee.org
In most of the GPU kernel programs, the synchronization statements are inserted manually
by the programmers, which is very labor intensive, and error-prone. In this paper, we …

Simulation of complex biochemical pathways in 3D process space via heterogeneous computing platform: Preliminary results

J Li, A Salighehdar, N Ganesan - … , ARC 2014, Vilamoura, Portugal, April 14 …, 2014 - Springer
Biological pathways typically consist of upto hundreds of reacting chemical species and
reactions within a biological system. Modeling and simulation of biological pathways in …

Stability Analysis of Population Dynamics Model in Microbial Biofilms with Non-participating Strains

J Banerjee, T Ranjan, RK Layek - Proceedings of the 7th ACM …, 2016 - dl.acm.org
The existence of phenotypic heterogeneity in single-species bacterial biofilms is well-
established in the published literature. However, the modeling of population dynamics in …

An Optimization Compiler Framework Based on Polyhedron Model for GPGPUs

L Liu - 2017 - corescholar.libraries.wright.edu
General purpose GPU (GPGPU) is an effective many-core architecture that can yield high
throughput for many scientific applications with thread-level parallelism. However, several …

Process simulation of complex biochemical pathways in explicit 3d space enabled by heterogeneous computing platform

J Li, A Salighehdar, N Ganesan - 2014 IEEE International …, 2014 - ieeexplore.ieee.org
Biological pathways typically consist of dozens of reacting chemical species and hundreds
of equations describing reactions within the biological system. Modeling and simulation of …

[PDF][PDF] A Compiler-assisted locality aware CTA Mapping Scheme.

L Liu, M Liu, C Wang - CATA, 2019 - easychair.org
General purpose GPU (GPGPU) is an effective many-core architecture that can yield high
throughput for many scientific applications with thread-level parallelism. However, several …

Safeguarding abila through multiple data perspectives VAST 2014 Grand Challenge award: Effective analysis and presentation

P Saraf, P Butle… - 2014 IEEE Conference on …, 2014 - ieeexplore.ieee.org
We introduce a system for visual analysis of news articles, emails, GPS tracking data,
financial transactions and streaming micro-blog data. This system was developed in …

[图书][B] Language design and implementation for computational modeling, simulation and visualization

V Sharma - 2015 - search.proquest.com
Computational models have become an essential tool in engineering and science. Modeling
and simulation platforms are being used to describe complex systems where the user builds …