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John Gounley
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2020 – today
- 2024
- [j15]Debsindhu Bhowmik
, Pei Zhang, Zachary R. Fox, Stephan Irle, John Gounley
:
Enhancing molecular design efficiency: Uniting language models and generative networks with genetic algorithms. Patterns 5(4): 100947 (2024) - [i5]Prasanna Date, Dong Jun Woun, Kathleen E. Hamilton, Eduardo Antonio Coello Pérez, Mayanka Chandra Shekar, Francisco Rios, John Gounley
, In-Saeng Suh, Travis S. Humble, Georgia D. Tourassi:
Adiabatic Quantum Support Vector Machines. CoRR abs/2401.12485 (2024) - [i4]Pei Zhang, M. Paul Laiu, Matthew Norman, Doug Stefanski, John Gounley:
MATEY: multiscale adaptive foundation models for spatiotemporal physical systems. CoRR abs/2412.20601 (2024) - 2023
- [j14]Marianna Pepona
, John Gounley
, Amanda Randles
:
Effect of constitutive law on the erythrocyte membrane response to large strains. Comput. Math. Appl. 132: 145-160 (2023) - [j13]Darren J. Hsu, Hao Lu
, Aditya Kashi
, Michael A. Matheson, John Gounley
, Feiyi Wang
, Wayne Joubert
, Jens Glaser
:
TwoFold: Highly accurate structure and affinity prediction for protein-ligand complexes from sequences. Int. J. High Perform. Comput. Appl. 37(6): 666-682 (2023) - [j12]Andrew E. Blanchard, Debsindhu Bhowmik, Zachary R. Fox, John Gounley
, Jens Glaser, Belinda S. Akpa
, Stephan Irle:
Adaptive language model training for molecular design. J. Cheminformatics 15(1): 59 (2023) - [j11]Pei Zhang
, Logan T. Kearney
, Debsindhu Bhowmik, Zachary R. Fox, Amit K. Naskar
, John Gounley
:
Transferring a Molecular Foundation Model for Polymer Property Predictions. J. Chem. Inf. Model. 63(24): 7689-7698 (2023) - [j10]Adam Spannaus
, John Gounley, Mayanka Chandra Shekar, Zachary R. Fox, Jamaludin Mohd-Yusof, Noah Schaefferkoetter, Heidi A. Hanson:
FrESCO: Framework for Exploring Scalable Computational Oncology. J. Open Source Softw. 8(90): 5345 (2023) - [j9]Junqi Yin
, Sajal Dash
, John Gounley
, Feiyi Wang, Georgia D. Tourassi:
Evaluation of pre-training large language models on leadership-class supercomputers. J. Supercomput. 79(18): 20747-20768 (2023) - [c17]Kathleen E. Hamilton, Mayanka Chandra Shekar, John Gounley
, Dhanvi Bharadwaj, Prasanna Date, Eduardo Antonio Coello Pérez, In-Saeng Suh, Georgia D. Tourassi:
Characterizing Quantum Classifier Utility in Natural Language Processing Workflows. QCE 2023: 369-370 - [c16]Sayan Roychowdhury
, Samreen T. Mahmud
, Aristotle X. Martin
, Peter Balogh
, Daniel F. Puleri
, John Gounley
, Erik W. Draeger
, Amanda Randles
:
Enhancing Adaptive Physics Refinement Simulations Through the Addition of Realistic Red Blood Cell Counts. SC 2023: 41:1-41:13 - [c15]Aristotle X. Martin
, Geng Liu
, William Ladd
, Seyong Lee
, John Gounley
, Jeffrey S. Vetter
, Saumil Patel
, Silvio Rizzi
, Victor A. Mateevitsi
, Joseph A. Insley
, Amanda Randles
:
Performance Evaluation of Heterogeneous GPU Programming Frameworks for Hemodynamic Simulations. SC Workshops 2023: 1126-1137 - [c14]Pedro Valero-Lara
, Jeffrey S. Vetter
, John Gounley
, Amanda Randles
:
Moment Representation of Regularized Lattice Boltzmann Methods on NVIDIA and AMD GPUs. SC Workshops 2023: 1697-1704 - [i3]Shuaiwen Leon Song, Bonnie Kruft, Minjia Zhang, Conglong Li, Shiyang Chen, Chengming Zhang, Masahiro Tanaka, Xiaoxia Wu, Jeff Rasley, Ammar Ahmad Awan, Connor Holmes, Martin Cai, Adam Ghanem, Zhongzhu Zhou, Yuxiong He, Pete Luferenko, Divya Kumar, Jonathan A. Weyn, Ruixiong Zhang, Sylwester Klocek, Volodymyr Vragov, Mohammed AlQuraishi, Gustaf Ahdritz, Christina Floristean, Cristina Negri, Rao Kotamarthi, Venkatram Vishwanath, Arvind Ramanathan, Sam Foreman, Kyle Hippe, Troy Arcomano, Romit Maulik, Maxim Zvyagin, Alexander Brace, Bin Zhang, Cindy Orozco Bohorquez, Austin Clyde, Bharat Kale, Danilo Perez-Rivera, Heng Ma, Carla M. Mann
, Michael W. Irvin, J. Gregory Pauloski, Logan T. Ward, Valérie Hayot-Sasson, Murali Emani, Zhen Xie, Diangen Lin, Maulik Shukla, Ian T. Foster, James J. Davis, Michael E. Papka, Thomas S. Brettin, Prasanna Balaprakash, Gina Tourassi, John Gounley
, Heidi A. Hanson, Thomas E. Potok, Massimiliano Lupo Pasini, Kate Evans, Dan Lu, Dalton D. Lunga, Junqi Yin, Sajal Dash, Feiyi Wang, Mallikarjun Shankar, Isaac Lyngaas, Xiao Wang, Guojing Cong, Pei Zhang, Ming Fan, Siyan Liu, Adolfy Hoisie, Shinjae Yoo, Yihui Ren, William Tang, Kyle Felker, Alexey Svyatkovskiy, Hang Liu, Ashwin M. Aji, Angela Dalton, Michael J. Schulte, Karl Schulz, Yuntian Deng, Weili Nie, Josh Romero, Christian Dallago, Arash Vahdat, Chaowei Xiao, Thomas Gibbs, Anima Anandkumar, Rick Stevens:
DeepSpeed4Science Initiative: Enabling Large-Scale Scientific Discovery through Sophisticated AI System Technologies. CoRR abs/2310.04610 (2023) - [i2]Pei Zhang, Logan T. Kearney, Debsindhu Bhowmik, Zachary R. Fox, Amit K. Naskar, John Gounley
:
Transferring a molecular foundation model for polymer property predictions. CoRR abs/2310.16958 (2023) - [i1]Xiao Wang, Isaac Lyngaas, Aristeidis Tsaris, Peng Chen, Sajal Dash, Mayanka Chandra Shekar, Tao Luo, Hong-Jun Yoon, Mohamed Wahib, John Gounley
:
Ultra-Long Sequence Distributed Transformer. CoRR abs/2311.02382 (2023) - 2022
- [j8]Andrew E. Blanchard
, John Gounley
, Debsindhu Bhowmik, Mayanka Chandra Shekar, Isaac Lyngaas
, Shang Gao, Junqi Yin, Aristeidis Tsaris, Feiyi Wang, Jens Glaser
:
Language models for the prediction of SARS-CoV-2 inhibitors. Int. J. High Perform. Comput. Appl. 36(5-6): 587-602 (2022) - [j7]Andrew E. Blanchard
, Mayanka Chandra Shekar, Shang Gao
, John Gounley
, Isaac Lyngaas
, Jens Glaser
, Debsindhu Bhowmik
:
Automating Genetic Algorithm Mutations for Molecules Using a Masked Language Model. IEEE Trans. Evol. Comput. 26(4): 793-799 (2022) - [j6]John Gounley
, Madhurima Vardhan, Erik W. Draeger
, Pedro Valero-Lara
, Shirley V. Moore, Amanda Randles
:
Propagation Pattern for Moment Representation of the Lattice Boltzmann Method. IEEE Trans. Parallel Distributed Syst. 33(3): 642-653 (2022) - [c13]Daniel F. Puleri, Sayan Roychowdhury, Peter Balogh
, John Gounley
, Erik W. Draeger, Jeff Ames, Adebayo Adebiyi, Simbarashe Chidyagwai, Benjamín Hernández, Seyong Lee, Shirley V. Moore, Jeffrey S. Vetter, Amanda Randles
:
High Performance Adaptive Physics Refinement to Enable Large-Scale Tracking of Cancer Cell Trajectory. CLUSTER 2022: 230-242 - [c12]Andrew E. Blanchard, Pei Zhang, Debsindhu Bhowmik, Kshitij Mehta, John Gounley
, Samuel Temple Reeve, Stephan Irle, Massimiliano Lupo Pasini:
Computational Workflow for Accelerated Molecular Design Using Quantum Chemical Simulations and Deep Learning Models. SMC 2022: 3-19 - 2021
- [j5]Shang Gao
, Mohammed M. Alawad, M. Todd Young
, John Gounley
, Noah Schaefferkoetter, Hong-Jun Yoon
, Xiao-Cheng Wu, Eric B. Durbin
, Jennifer A. Doherty
, Antoinette Stroup
, Linda Coyle, Georgia D. Tourassi
:
Limitations of Transformers on Clinical Text Classification. IEEE J. Biomed. Health Informatics 25(9): 3596-3607 (2021) - [c11]Serena H. Chen
, M. Todd Young, John Gounley
, Christopher B. Stanley
, Debsindhu Bhowmik:
How Distinct Structural Flexibility within SARS-CoV-2 Spike Protein Reveals Potential Therapeutic Targets. IEEE BigData 2021: 4333-4341 - 2020
- [j4]Hong-Jun Yoon, Hilda B. Klasky, John P. Gounley
, Mohammed M. Alawad, Shang Gao, Eric B. Durbin, Xiao-Cheng Wu, Antoinette Stroup, Jennifer A. Doherty, Linda Coyle, Lynne Penberthy, James Blair Christian, Georgia D. Tourassi:
Accelerated training of bootstrap aggregation-based deep information extraction systems from cancer pathology reports. J. Biomed. Informatics 110: 103564 (2020) - [j3]Jeff Ames, Daniel F. Puleri
, Peter Balogh
, John Gounley
, Erik W. Draeger, Amanda Randles
:
Multi-GPU immersed boundary method hemodynamics simulations. J. Comput. Sci. 44: 101153 (2020) - [c10]Sayan Roychowdhury, John Gounley
, Amanda Randles
:
Evaluating the Influence of Hemorheological Parameters on Circulating Tumor Cell Trajectory and Simulation Time. PASC 2020: 4:1-4:10
2010 – 2019
- 2019
- [j2]John Gounley
, Madhurima Vardhan, Amanda Randles
:
A framework for comparing vascular hemodynamics at different points in time. Comput. Phys. Commun. 235: 1-8 (2019) - [j1]Seyong Lee
, John Gounley
, Amanda Randles
, Jeffrey S. Vetter:
Performance portability study for massively parallel computational fluid dynamics application on scalable heterogeneous architectures. J. Parallel Distributed Comput. 129: 1-13 (2019) - [c9]Hong-Jun Yoon, John Gounley
, Shang Gao, Mohammed M. Alawad, Arvind Ramanathan, Georgia D. Tourassi:
Model-based Hyperparameter Optimization of Convolutional Neural Networks for Information Extraction from Cancer Pathology Reports on HPC. BHI 2019: 1-4 - [c8]Hong-Jun Yoon, John Gounley
, M. Todd Young, Georgia D. Tourassi:
Information Extraction from Cancer Pathology Reports with Graph Convolution Networks for Natural Language Texts. IEEE BigData 2019: 4561-4564 - [c7]Gregory Herschlag
, John Gounley
, Sayan Roychowdhury, Erik W. Draeger, Amanda Randles
:
Multi-physics simulations of particle tracking in arterial geometries with a scalable moving window algorithm. CLUSTER 2019: 1-11 - [c6]John Gounley
, Erik W. Draeger, Amanda Randles
:
Immersed Boundary Method Halo Exchange in a Hemodynamics Application. ICCS (1) 2019: 441-455 - [c5]Madhurima Vardhan, Harvey Shi
, John Gounley
, S. James Chen, Andrew Kahn, Jane A. Leopold, Amanda Randles:
Investigating the Role of VR in a Simulation-Based Medical Planning System for Coronary Interventions. MICCAI (5) 2019: 366-374 - [c4]Madhurima Vardhan, John Gounley
, Luiz Hegele
, Erik W. Draeger, Amanda Randles
:
Moment representation in the lattice Boltzmann method on massively parallel hardware. SC 2019: 34:1-34:21 - 2017
- [c3]John Gounley
, Erik W. Draeger, Amanda Randles
:
Numerical simulation of a compound capsule in a constricted microchannel. ICCS 2017: 175-184 - [c2]John Gounley
, Madhurima Vardhan, Amanda Randles
:
A Computational Framework to Assess the Influence of Changes in Vascular Geometry on Blood Flow. PASC 2017: 2:1-2:8 - 2016
- [c1]John Gounley
, Rafeed Chaudhury, Madhurima Vardhan, Michael Driscoll, Girish Pathangey
, Kevin Winarta, Justin Ryan, David H. Frakes, Amanda Randles
:
Does the degree of coarctation of the aorta influence wall shear stress focal heterogeneity? EMBC 2016: 3429-3432
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last updated on 2025-01-26 23:49 CET by the dblp team
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