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Bioinformatics (Oxford, England)|October 14, 2020
Learning graph representations of biochemical networks and its application to enzymatic link predictionJulie Jiang, Li-Ping Liu, Soha HassounBioinformatics (Oxford, England)|February 15, 2023
Using graph neural networks for site-of-metabolism prediction and its applications to ranking promiscuous enzymatic productsVladimir Porokhin, Li-Ping Liu, Soha HassounJournal of Computer-Aided Molecular Design|June 29, 2025
Protein-ligand co-design: a case for improving binding affinity between type II NADH:quinone oxidoreductase and quinonesVladimir Porokhin, Anne M Brown, Soha HassounPlos Computational Biology|April 28, 2020
ASAP-SML: An antibody sequence analysis pipeline using statistical testing and machine learningXinmeng Li, James A Van Deventer, Soha HassounGenomics|March 29, 2017
Computational prediction of functional abortive RNA in E. coliJeremy I Marcus, Soha Hassoun, Nikhil U NairBioinformatics (Oxford, England)|January 30, 2021
Enzyme Promiscuity Prediction Using Hierarchy-Informed Multi-Label ClassificationGian Marco Visani, Michael C Hughes, Soha HassounIEEE/ACM Transactions on Computational Biology and Bioinformatics|December 17, 2015
PreProPath: An Uncertainty-Aware Algorithm for Identifying Predictable Profitable Pathways in Biochemical NetworksEhsan Ullah, Mark Walker, Kyongbum Lee, et al.BMC Systems Biology|November 23, 2013
MC3: a steady-state model and constraint consistency checker for biochemical networksMona Yousofshahi, Ehsan Ullah, Russell Stern, et al.BMC Systems Biology|April 4, 2013
Probabilistic strain optimization under constraint uncertaintyMona Yousofshahi, Michael Orshansky, Kyongbum Lee, et al.Metabolites|May 8, 2020
Pathway-Activity Likelihood Analysis and Metabolite Annotation for Untargeted Metabolomics Using Probabilistic ModelingRamtin Hosseini, Neda Hassanpour, Li-Ping Liu, et al.Pageof 6