Vipin Sachdeva

发表

Predicting the structural basis of targeted protein degradation by integrating molecular dynamics simulations with structural mass spectrometry

Samuel D. Lotz, João V. Ribeiro, Asghar M. Razavi, 2022, Nature Communications.

A Memory and Time Scalable Parallelization of the Reptile Error-Correction Code

Srinivas Aluru, David A. Bader, Vipin Sachdeva, 2016, 2016 IEEE International Parallel and Distributed Processing Symposium Workshops (IPDPSW).

Molecular Dynamics Range-Limited Force Evaluation Optimized for FPGAs

Woody Sherman, Vipin Sachdeva, Tong Geng, 2019, 2019 IEEE 30th International Conference on Application-specific Systems, Architectures and Processors (ASAP).

BioPerf: a benchmark suite to evaluate high-performance computer architecture on bioinformatics applications

David A. Bader, Yue Li, Tao Li, 2005, IEEE International. 2005 Proceedings of the IEEE Workload Characterization Symposium, 2005..

OpenCL for HPC with FPGAs: Case study in molecular electrostatics

Chen Yang, Jiayi Sheng, Martin C. Herbordt, 2017, 2017 IEEE High Performance Extreme Computing Conference (HPEC).

K-mer clustering algorithm using a MapReduce framework: application to the parallelization of the Inchworm module of Trinity

K. E. Jordan, M. Winn, C. Kim, 2017, bioRxiv.

System-Level Modeling of GPU/FPGA Clusters for Molecular Dynamics Simulations

Martin C. Herbordt, Tong Geng, Chunshu Wu, 2021, 2021 IEEE High Performance Extreme Computing Conference (HPEC).

Atomic-Resolution Prediction of Degrader-mediated Ternary Complex Structures by Combining Molecular Simulations with Hydrogen Deuterium Exchange

Samuel D. Lotz, João V. Ribeiro, Asghar M. Razavi, 2021, bioRxiv.

A Cache-Aware Parallel Implementation of the Push-Relabel Network Flow Algorithm and Experimental Evaluation of the Gap Relabeling Heuristic

David A. Bader, Vipin Sachdeva, Vipin Sachdeva, 2006, PDCS.

A Communication-Efficient Multi-Chip Design for Range-Limited Molecular Dynamics

Woody Sherman, Chen Yang, Vipin Sachdeva, 2020, 2020 IEEE High Performance Extreme Computing Conference (HPEC).

Fully Integrated On-FPGA Molecular Dynamics Simulations

Jiayi Sheng, Martin C. Herbordt, Woody Sherman, 2019, ArXiv.

OpenRBC: A Fast Simulator of Red Blood Cells at Protein Resolution

He Li, Lu Lu, George E. Karniadakis, 2017, Biophysical journal.

Coupling a Basin Modeling and a Seismic Code using MOAB

Timothy J. Tautges, Michael Perrone, John Magerlein, 2012, ICCS.

An OpenCL 3D FFT for Molecular Dynamics Simulations on Multiple FPGAs pdf

Martin C. Herbordt, Vipin Sachdeva, Carlo Pascoe, 2020, ArXiv.