Francis J. Alexander

36 papers A* 2A 2Misc 2Journal 26Unranked 3

Year	Rank	Type	Title / Venue / Authors
2025	—	`conf`	HiPerRAG: High-Performance Retrieval Augmented Generation for Scientific Insights. PASC 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
2025	J	`jnl`	HiPerRAG: High-Performance Retrieval Augmented Generation for Scientific Insights. CoRR 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
2025	J	`jnl`	Reinforcement Learning Closures for Underresolved Partial Differential Equations using Synthetic Data. CoRR Lothar Heimbach, Sebastian Kaltenbach, Petr Karnakov, Francis J. Alexander, Petros Koumoutsakos
2025	J	`jnl`	Solving Functional PDEs with Gaussian Processes and Applications to Functional Renormalization Group Equations. CoRR Xianjin Yang, Matthieu Darcy, Matthew Hudes, Francis J. Alexander, Gregory Eyink, Houman Owhadi
2024	A	`conf`	Multi-fidelity Bayesian Optimization with Multiple Information Sources of Input-dependent Fidelity. UAI Mingzhou Fan, Byung-Jun Yoon, Edward R. Dougherty, Nathan M. Urban, Francis J. Alexander, Raymundo Arróyave, Xiaoning Qian
2024	J	`jnl`	Multi-objective latent space optimization of generative molecular design models. Patterns A. N. M. Nafiz Abeer, Nathan M. Urban, M. Ryan Weil, Francis J. Alexander, Byung-Jun Yoon
2024	J	`jnl`	Pathway-based analyses of gene expression profiles at low doses of ionizing radiation. Frontiers Bioinform. 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
2023	J	`jnl`	A Rigorous Uncertainty-Aware Quantification Framework Is Essential for Reproducible and Replicable Machine Learning Workflows. CoRR Line Pouchard, Kristofer G. Reyes, Francis J. Alexander, Byung-Jun Yoon
2023	J	`jnl`	Accelerating scientific discoveries through data-driven innovations. Patterns Francis J. Alexander, Meifeng Lin, Xiaoning Qian, Byung-Jun Yoon
2023	—	`conf`	Automated Extraction of Molecular Interactions and Pathway Knowledge using Large Language Model, Galactica: Opportunities and Challenges. BioNLP@ACL Gilchan Park, Byung-Jun Yoon, Xihaier Luo, Vanessa López-Marrero, Patrick R. Johnstone, Shinjae Yoo, Francis J. Alexander
2023	J	`jnl`	Comparative Performance Evaluation of Large Language Models for Extracting Molecular Interactions and Pathway Knowledge. CoRR Gilchan Park, Byung-Jun Yoon, Xihaier Luo, Vanessa López-Marrero, Patrick R. Johnstone, Shinjae Yoo, Francis J. Alexander
2023	J	`jnl`	Comprehensive analysis of gene expression profiles to radiation exposure reveals molecular signatures of low-dose radiation response. CoRR Xihaier Luo, Sean McCorkle, Gilchan Park, Vanessa López-Marrero, Shinjae Yoo, Edward R. Dougherty, Xiaoning Qian, Francis J. Alexander, Byung-Jun Yoon
2023	J	`jnl`	Optimal decision-making in high-throughput virtual screening pipelines. Patterns Hyun-Myung Woo, Xiaoning Qian, Li Tan, Shantenu Jha, Francis J. Alexander, Edward R. Dougherty, Byung-Jun Yoon
2023	J	`jnl`	Sensitivity Analysis of Genome-Scale Metabolic Flux Prediction. J. Comput. Biol. Puhua Niu, Maria J. Soto, Shuai Huang, Byung-Jun Yoon, Edward R. Dougherty, Francis J. Alexander, Ian Blaby, Xiaoning Qian
2022	Misc	`conf`	Adaptive Group Testing with Mismatched Models. ICASSP Mingzhou Fan, Byung-Jun Yoon, Francis J. Alexander, Edward R. Dougherty, Xiaoning Qian
2022	—	`conf`	Comprehensive analysis of gene expression profiles to radiation exposure reveals molecular signatures of low-dose radiation response. BIBM Xihaier Luo, Sean McCorkle, Gilchan Park, Vanessa López-Marrero, Shinjae Yoo, Edward R. Dougherty, Xiaoning Qian, Francis J. Alexander, Byung-Jun Yoon
2022	J	`jnl`	Multi-Objective Latent Space Optimization of Generative Molecular Design Models. CoRR A. N. M. Nafiz Abeer, Nathan M. Urban, M. Ryan Weil, Francis J. Alexander, Byung-Jun Yoon
2022	J	`jnl`	Robust importance sampling for error estimation in the context of optimal Bayesian transfer learning. Patterns Omar Maddouri, Xiaoning Qian, Francis J. Alexander, Edward R. Dougherty, Byung-Jun Yoon
2021	A	`conf`	Bayesian Active Learning by Soft Mean Objective Cost of Uncertainty. AISTATS Guang Zhao, Edward R. Dougherty, Byung-Jun Yoon, Francis J. Alexander, Xiaoning Qian
2021	J	`jnl`	Co-design Center for Exascale Machine Learning Technologies (ExaLearn). Int. J. High Perform. Comput. Appl. Francis J. Alexander, James 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
2021	A*	`conf`	Efficient Active Learning for Gaussian Process Classification by Error Reduction. NeurIPS Guang Zhao, Edward R. Dougherty, Byung-Jun Yoon, Francis J. Alexander, Xiaoning Qian
2021	J	`jnl`	Optimal Decision Making in High-Throughput Virtual Screening Pipelines. CoRR Hyun-Myung Woo, Xiaoning Qian, Li Tan, Shantenu Jha, Francis J. Alexander, Edward R. Dougherty, Byung-Jun Yoon
2021	J	`jnl`	Robust Importance Sampling for Error Estimation in the Context of Optimal Bayesian Transfer Learning. CoRR Omar Maddouri, Xiaoning Qian, Francis J. Alexander, Edward R. Dougherty, Byung-Jun Yoon
2021	A*	`conf`	Uncertainty-aware Active Learning for Optimal Bayesian Classifier. ICLR Guang Zhao, Edward R. Dougherty, Byung-Jun Yoon, Francis J. Alexander, Xiaoning Qian
2020	J	`jnl`	Model-Based Robust Filtering and Experimental Design for Stochastic Differential Equation Systems. IEEE Trans. Signal Process. Guang Zhao, Xiaoning Qian, Byung-Jun Yoon, Francis J. Alexander, Edward R. Dougherty
2020	J	`jnl`	Optimal Bounds on Nonlinear Partial Differential Equations in Model Certification, Validation, and Experimental Design. CoRR Mike McKerns, Francis J. Alexander, Kyle S. Hickmann, Timothy John Sullivan, Diane E. Vaughan
2015	J	`jnl`	Open Simulation Laboratories [Guest editors' introduction]. Comput. Sci. Eng. Francis J. Alexander, Charles Meneveau
2015	Misc	`conf`	Small data is the problem. ACSSC Edward R. Dougherty, Lori A. Dalton, Francis J. Alexander
2014	J	`jnl`	Noise propagation in hybrid models of nonlinear systems: The Ginzburg-Landau equation. J. Comput. Phys. Søren Taverniers, Francis J. Alexander, Daniel M. Tartakovsky
2013	—	`ch.`	Climate Informatics. Computational Intelligent Data Analysis for Sustainable Development Claire Monteleoni, Gavin A. Schmidt, Francis J. Alexander, Alexandru Niculescu-Mizil, Karsten Steinhaeuser, Michael K. Tippett, Arindam Banerjee, M. Benno Blumenthal, Auroop R. Ganguly, Jason E. Smerdon, Marco Tedesco
2013	J	`jnl`	Machine Learning. Comput. Sci. Eng. Francis J. Alexander
2011	J	`jnl`	Big Data [Guest editorial]. Comput. Sci. Eng. Francis J. Alexander, Adolfy Hoisie, Alexander S. Szalay
2008	J	`jnl`	A Control Variate Approach for Improving Efficiency of Ensemble Monte Carlo CoRR Tarik Borogovac, Francis J. Alexander, Pirooz Vakili
2005	J	`jnl`	Adaptive mesh refinement for multiscale nonequilibrium physics. Comput. Sci. Eng. Daniel F. Martin, Phillip Colella, Marian Anghel, Francis J. Alexander
2005	J	`jnl`	Guest Editors' Introduction: Multiphysics Modeling. Comput. Sci. Eng. Daniel M. Tartakovsky, Francis J. Alexander
2005	J	`jnl`	Noise in algorithm refinement methods. Comput. Sci. Eng. Francis J. Alexander, Daniel M. Tartakovsky, Alejandro L. Garcia