Francis J. Alexander

Publication Activity (10 Years)

Years Active: 2005-2024
Publications (10 Years): 20

Top Topics

Experimental Design

Ionizing Radiation

Error Estimation

Top Venues

J. Comput. Biol.

Publications

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
Pathway-based analyses of gene expression profiles at low doses of ionizing radiation. Frontiers Bioinform. 4 (2024)
Line Pouchard, Kristofer G. Reyes, Francis J. Alexander, Byung-Jun Yoon
A Rigorous Uncertainty-Aware Quantification Framework Is Essential for Reproducible and Replicable Machine Learning Workflows. CoRR (2023)
Xihaier Luo, Sean McCorkle, Gilchan Park, Vanessa López-Marrero, Shinjae Yoo, Edward R. Dougherty, Xiaoning Qian, Francis J. Alexander, Byung-Jun Yoon
Comprehensive analysis of gene expression profiles to radiation exposure reveals molecular signatures of low-dose radiation response. CoRR (2023)
Francis J. Alexander, Meifeng Lin, Xiaoning Qian, Byung-Jun Yoon
Accelerating scientific discoveries through data-driven innovations. Patterns 4 (11) (2023)
Puhua Niu, Maria J. Soto, Shuai Huang, Byung-Jun Yoon, Edward R. Dougherty, Francis J. Alexander, Ian Blaby, Xiaoning Qian
Sensitivity Analysis of Genome-Scale Metabolic Flux Prediction. J. Comput. Biol. 30 (7) (2023)
Hyun-Myung Woo, Xiaoning Qian, Li Tan, Shantenu Jha, Francis J. Alexander, Edward R. Dougherty, Byung-Jun Yoon
Optimal decision-making in high-throughput virtual screening pipelines. Patterns 4 (11) (2023)
Gilchan Park, Byung-Jun Yoon, Xihaier Luo, Vanessa López-Marrero, Patrick R. Johnstone, Shinjae Yoo, Francis J. Alexander
Comparative Performance Evaluation of Large Language Models for Extracting Molecular Interactions and Pathway Knowledge. CoRR (2023)
Gilchan Park, Byung-Jun Yoon, Xihaier Luo, Vanessa López-Marrero, Patrick R. Johnstone, Shinjae Yoo, Francis J. Alexander
Automated Extraction of Molecular Interactions and Pathway Knowledge using Large Language Model, Galactica: Opportunities and Challenges. BioNLP@ACL (2023)
A. N. M. Nafiz Abeer, Nathan Urban, M. Ryan Weil, Francis J. Alexander, Byung-Jun Yoon
Multi-Objective Latent Space Optimization of Generative Molecular Design Models. CoRR (2022)
Xihaier Luo, Sean McCorkle, Gilchan Park, Vanessa López-Marrero, Shinjae Yoo, Edward R. Dougherty, Xiaoning Qian, Francis J. Alexander, Byung-Jun Yoon
Comprehensive analysis of gene expression profiles to radiation exposure reveals molecular signatures of low-dose radiation response. BIBM (2022)
Omar Maddouri, Xiaoning Qian, Francis J. Alexander, Edward R. Dougherty, Byung-Jun Yoon
Robust importance sampling for error estimation in the context of optimal Bayesian transfer learning. Patterns 3 (3) (2022)
Mingzhou Fan, Byung-Jun Yoon, Francis J. Alexander, Edward R. Dougherty, Xiaoning Qian
Adaptive Group Testing with Mismatched Models. ICASSP (2022)
Omar Maddouri, Xiaoning Qian, Francis J. Alexander, Edward R. Dougherty, Byung-Jun Yoon
Robust Importance Sampling for Error Estimation in the Context of Optimal Bayesian Transfer Learning. CoRR (2021)
Guang Zhao, Edward R. Dougherty, Byung-Jun Yoon, Francis J. Alexander, Xiaoning Qian
Efficient Active Learning for Gaussian Process Classification by Error Reduction. NeurIPS (2021)
Guang Zhao, Edward R. Dougherty, Byung-Jun Yoon, Francis J. Alexander, Xiaoning Qian
Bayesian Active Learning by Soft Mean Objective Cost of Uncertainty. AISTATS (2021)
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 Ramakrishniah, 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
Co-design Center for Exascale Machine Learning Technologies (ExaLearn). Int. J. High Perform. Comput. Appl. 35 (6) (2021)
Hyun-Myung Woo, Xiaoning Qian, Li Tan, Shantenu Jha, Francis J. Alexander, Edward R. Dougherty, Byung-Jun Yoon
Optimal Decision Making in High-Throughput Virtual Screening Pipelines. CoRR (2021)
Guang Zhao, Edward R. Dougherty, Byung-Jun Yoon, Francis J. Alexander, Xiaoning Qian
Uncertainty-aware Active Learning for Optimal Bayesian Classifier. ICLR (2021)
Guang Zhao, Xiaoning Qian, Byung-Jun Yoon, Francis J. Alexander, Edward R. Dougherty
Model-Based Robust Filtering and Experimental Design for Stochastic Differential Equation Systems. IEEE Trans. Signal Process. 68 (2020)
Mike McKerns, Francis J. Alexander, Kyle S. Hickmann, Timothy John Sullivan, Diane E. Vaughan
Optimal Bounds on Nonlinear Partial Differential Equations in Model Certification, Validation, and Experimental Design. CoRR (2020)
Edward R. Dougherty, Lori A. Dalton, Francis J. Alexander
Small data is the problem. ACSSC (2015)
Francis J. Alexander, Charles Meneveau
Open Simulation Laboratories [Guest editors' introduction]. Comput. Sci. Eng. 17 (5) (2015)
Søren Taverniers, Francis J. Alexander, Daniel M. Tartakovsky
Noise propagation in hybrid models of nonlinear systems: The Ginzburg-Landau equation. J. Comput. Phys. 262 (2014)
Francis J. Alexander
Machine Learning. Comput. Sci. Eng. 15 (5) (2013)
Francis J. Alexander, Adolfy Hoisie, Alexander S. Szalay
Big Data [Guest editorial]. Comput. Sci. Eng. 13 (6) (2011)
Tarik Borogovac, Francis J. Alexander, Pirooz Vakili
A Control Variate Approach for Improving Efficiency of Ensemble Monte Carlo CoRR (2008)
Daniel F. Martin, Phillip Colella, Marian Anghel, Francis J. Alexander
Adaptive mesh refinement for multiscale nonequilibrium physics. Comput. Sci. Eng. 7 (3) (2005)
Francis J. Alexander, Daniel M. Tartakovsky, Alejandro L. Garcia
Noise in algorithm refinement methods. Comput. Sci. Eng. 7 (3) (2005)
Daniel M. Tartakovsky, Francis J. Alexander
Guest Editors' Introduction: Multiphysics Modeling. Comput. Sci. Eng. 7 (3) (2005)