Francis J. Alexander

According to our database, Francis J. Alexander authored at least 30 papers between 2005 and 2025.

Collaborative distances:

• Dijkstra number of three.
• Erdős number of three.

2025

Reinforcement Learning Closures for Underresolved Partial Differential Equations using Synthetic Data.

Lothar Heimbach, Sebastian Kaltenbach, Petr Karnakov, Francis J. Alexander, Petros Koumoutsakos

CoRR, May, 2025

HiPerRAG: High-Performance Retrieval Augmented Generation for Scientific Insights.

Ozan Gökdemir, Carlo Siebenschuh, Alexander Brace, Azton Wells, Brian Hsu, Kyle Hippe, Priyanka Vasanthakumari, Aswathy Ajith, J. Gregory Pauloski, Varuni Katti Sastry, Sam Foreman, Huihuo Zheng, Heng Ma, Bharat Kale, Nicholas Chia, Thomas Gibbs, Michael E. Papka, Thomas S. Brettin, Francis J. Alexander, Anima Anandkumar, Ian T. Foster, Rick Stevens, Venkatram Vishwanath, Arvind Ramanathan

CoRR, May, 2025

HiPerRAG: High-Performance Retrieval Augmented Generation for Scientific Insights.

Ozan Gökdemir, Carlo Siebenschuh, Alexander Brace, Azton Wells, Brian Hsu, Kyle Hippe, Priyanka Setty, Aswathy Ajith, J. Gregory Pauloski, Varuni Sastry, Sam Foreman, Huihuo Zheng, Heng Ma, Bharat Kale, Nicholas Chia, Thomas Gibbs, Michael E. Papka, Thomas S. Brettin, Francis J. Alexander, Anima Anandkumar, Ian T. Foster, Rick Stevens, Venkatram Vishwanath, Arvind Ramanathan

Proceedings of the Platform for Advanced Scientific Computing Conference, 2025

2024

Multi-objective latent space optimization of generative molecular design models.

A. N. M. Nafiz Abeer, Nathan M. Urban, M. Ryan Weil, Francis J. Alexander, Byung-Jun Yoon

Patterns, 2024

Pathway-based analyses of gene expression profiles at low doses of ionizing radiation.

Xihaier Luo, Seyednami Niyakan, Patrick R. Johnstone, Sean McCorkle, Gilchan Park, Vanessa López-Marrero, Shinjae Yoo, Edward R. Dougherty, Xiaoning Qian, Francis J. Alexander, Shantenu Jha, Byung-Jun Yoon

Frontiers Bioinform., 2024

Multi-fidelity Bayesian Optimization with Multiple Information Sources of Input-dependent Fidelity.

Mingzhou Fan, Byung-Jun Yoon, Edward R. Dougherty, Nathan M. Urban, Francis J. Alexander, Raymundo Arróyave, Xiaoning Qian

Proceedings of the Uncertainty in Artificial Intelligence, 2024

2023

Optimal decision-making in high-throughput virtual screening pipelines.

Hyun-Myung Woo, Xiaoning Qian, Li Tan, Shantenu Jha, Francis J. Alexander, Edward R. Dougherty, Byung-Jun Yoon

Patterns, November, 2023

Accelerating scientific discoveries through data-driven innovations.

Francis J. Alexander, Meifeng Lin, Xiaoning Qian, Byung-Jun Yoon

Patterns, November, 2023

Sensitivity Analysis of Genome-Scale Metabolic Flux Prediction.

Puhua Niu, Maria J. Soto, Shuai Huang, Byung-Jun Yoon, Edward R. Dougherty, Francis J. Alexander, Ian Blaby, Xiaoning Qian

J. Comput. Biol., July, 2023

Comparative Performance Evaluation of Large Language Models for Extracting Molecular Interactions and Pathway Knowledge.

Gilchan Park, Byung-Jun Yoon, Xihaier Luo, Vanessa López-Marrero, Patrick R. Johnstone, Shinjae Yoo, Francis J. Alexander

CoRR, 2023

A Rigorous Uncertainty-Aware Quantification Framework Is Essential for Reproducible and Replicable Machine Learning Workflows.

Line Pouchard, Kristofer G. Reyes, Francis J. Alexander, Byung-Jun Yoon

CoRR, 2023

Automated Extraction of Molecular Interactions and Pathway Knowledge using Large Language Model, Galactica: Opportunities and Challenges.

Gilchan Park, Byung-Jun Yoon, Xihaier Luo, Vanessa López-Marrero, Patrick R. Johnstone, Shinjae Yoo, Francis J. Alexander

Proceedings of the 22nd Workshop on Biomedical Natural Language Processing and BioNLP Shared Tasks, 2023

2022

Robust importance sampling for error estimation in the context of optimal Bayesian transfer learning.

Omar Maddouri, Xiaoning Qian, Francis J. Alexander, Edward R. Dougherty, Byung-Jun Yoon

Patterns, 2022

Adaptive Group Testing with Mismatched Models.

Mingzhou Fan, Byung-Jun Yoon, Francis J. Alexander, Edward R. Dougherty, Xiaoning Qian

Proceedings of the IEEE International Conference on Acoustics, 2022

Comprehensive analysis of gene expression profiles to radiation exposure reveals molecular signatures of low-dose radiation response.

Xihaier Luo, Sean McCorkle, Gilchan Park, Vanessa López-Marrero, Shinjae Yoo, Edward R. Dougherty, Xiaoning Qian, Francis J. Alexander, Byung-Jun Yoon

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2022

2021

Co-design Center for Exascale Machine Learning Technologies (ExaLearn).

Francis J. Alexander, James A. Ang, Jenna A. Bilbrey, Jan Balewski, Tiernan Casey, Ryan Chard, Jong Choi, Sutanay Choudhury, Bert J. Debusschere, Anthony M. DeGennaro, Nikoli Dryden, J. Austin Ellis, Ian T. Foster, Cristina Garcia-Cardona, Sayan Ghosh, Peter Harrington, Yunzhi Huang, Shantenu Jha, Travis Johnston, Ai Kagawa, Ramakrishnan Kannan, Neeraj Kumar, Zhengchun Liu, Naoya Maruyama, Satoshi Matsuoka, Erin McCarthy, Jamaludin Mohd-Yusof, Peter Nugent, Yosuke Oyama, Thomas Proffen, David Pugmire, Sivasankaran Rajamanickam, Vinay Ramakrishnaiah, Malachi Schram, Sudip K. Seal, Ganesh Sivaraman, Christine Sweeney, Li Tan, Rajeev Thakur, Brian Van Essen, Logan T. Ward, Paul M. Welch, Michael Wolf, Sotiris S. Xantheas, Kevin G. Yager, Shinjae Yoo, Byung-Jun Yoon

Int. J. High Perform. Comput. Appl., 2021

Efficient Active Learning for Gaussian Process Classification by Error Reduction.

Guang Zhao, Edward R. Dougherty, Byung-Jun Yoon, Francis J. Alexander, Xiaoning Qian

Proceedings of the Advances in Neural Information Processing Systems 34: Annual Conference on Neural Information Processing Systems 2021, 2021

Uncertainty-aware Active Learning for Optimal Bayesian Classifier.

Guang Zhao, Edward R. Dougherty, Byung-Jun Yoon, Francis J. Alexander, Xiaoning Qian

Proceedings of the 9th International Conference on Learning Representations, 2021

Bayesian Active Learning by Soft Mean Objective Cost of Uncertainty.

Guang Zhao, Edward R. Dougherty, Byung-Jun Yoon, Francis J. Alexander, Xiaoning Qian

Proceedings of the 24th International Conference on Artificial Intelligence and Statistics, 2021

2020

Model-Based Robust Filtering and Experimental Design for Stochastic Differential Equation Systems.

Guang Zhao, Xiaoning Qian, Byung-Jun Yoon, Francis J. Alexander, Edward R. Dougherty

IEEE Trans. Signal Process., 2020

Optimal Bounds on Nonlinear Partial Differential Equations in Model Certification, Validation, and Experimental Design.

Mike McKerns, Francis J. Alexander, Kyle S. Hickmann, Timothy John Sullivan, Diane E. Vaughan

CoRR, 2020

2015

Open Simulation Laboratories [Guest editors' introduction].

Francis J. Alexander, Charles Meneveau

Comput. Sci. Eng., 2015

Small data is the problem.

Edward R. Dougherty, Lori A. Dalton, Francis J. Alexander

Proceedings of the 49th Asilomar Conference on Signals, Systems and Computers, 2015

2014

Noise propagation in hybrid models of nonlinear systems: The Ginzburg-Landau equation.

Søren Taverniers, Francis J. Alexander, Daniel M. Tartakovsky

J. Comput. Phys., 2014

2013

Machine Learning.

Francis J. Alexander

Comput. Sci. Eng., 2013

2011

Big Data [Guest editorial].

Francis J. Alexander, Adolfy Hoisie, Alexander S. Szalay

Comput. Sci. Eng., 2011

2008

A Control Variate Approach for Improving Efficiency of Ensemble Monte Carlo

Tarik Borogovac, Francis J. Alexander, Pirooz Vakili

CoRR, 2008

2005

Guest Editors' Introduction: Multiphysics Modeling.

Daniel M. Tartakovsky, Francis J. Alexander

Comput. Sci. Eng., 2005

Adaptive mesh refinement for multiscale nonequilibrium physics.

Daniel F. Martin, Phillip Colella, Marian Anghel, Francis J. Alexander

Comput. Sci. Eng., 2005

Noise in algorithm refinement methods.

Francis J. Alexander, Daniel M. Tartakovsky, Alejandro L. Garcia

Comput. Sci. Eng., 2005