| PSAMM: a portable system for the analysis of metabolic models JL Steffensen, K Dufault-Thompson, Y Zhang PLoS computational biology 12 (2), e1004732, 2016 | 45 | 2016 |
| The genome sequence of the grape phylloxera provides insights into the evolution, adaptation, and invasion routes of an iconic pest C Rispe, F Legeai, PD Nabity, R Fernández, AK Arora, P Baa-Puyoulet, ... BMC biology 18, 1-25, 2020 | 41 | 2020 |
| Microbiome Analysis Reveals Diversity and Function of Mollicutes Associated with the Eastern Oyster, Crassostrea virginica ZT Pimentel, K Dufault-Thompson, KT Russo, AK Scro, RM Smolowitz, ... Msphere 6 (3), 10.1128/msphere. 00227-21, 2021 | 30 | 2021 |
| A Genome-Scale Model of Shewanella piezotolerans Simulates Mechanisms of Metabolic Diversity and Energy Conservation K Dufault-Thompson, H Jian, R Cheng, J Li, F Wang, Y Zhang Msystems 2 (2), 10.1128/msystems. 00165-16, 2017 | 14 | 2017 |
| Taxonomic distribution and evolutionary analysis of the equol biosynthesis gene cluster K Dufault-Thompson, B Hall, X Jiang Bmc Genomics 23 (1), 182, 2022 | 11 | 2022 |
| Using psamm for the curation and analysis of genome-scale metabolic models K Dufault-Thompson, JL Steffensen, Y Zhang Metabolic Network Reconstruction and Modeling: Methods and Protocols, 131-150, 2018 | 8 | 2018 |
| Wastewater surveillance uncovers regional diversity and dynamics of SARS-CoV-2 variants across nine states in the USA RS Fontenele, Y Yang, EM Driver, A Magge, S Kraberger, JM Custer, ... Science of the Total Environment 877, 162862, 2023 | 6 | 2023 |
| BilR is a gut microbial enzyme that reduces bilirubin to urobilinogen B Hall, S Levy, K Dufault-Thompson, G Arp, A Zhong, GM Ndjite, A Weiss, ... Nature Microbiology, 1-12, 2024 | 4 | 2024 |
| Applications of de Bruijn graphs in microbiome research K Dufault‐Thompson, X Jiang iMeta 1 (1), e4, 2022 | 3 | 2022 |
| Diversity and Function of the Eastern Oyster (Crassostrea virginica) Microbiome ZT Pimentel, K Dufault-Thompson, KT Russo, AK Scro, RM Smolowitz, ... bioRxiv, 2020.09. 08.288811, 2020 | 3 | 2020 |
| Discovery of the gut microbial enzyme responsible for bilirubin reduction to urobilinogen B Hall, S Levy, K Dufault-Tompson, G Minabou, A Weiss, D Braccia, ... bioRxiv, 2023.02. 07.527579, 2023 | 2 | 2023 |
| Deciphering Phage-Host Specificity Based on the Association of Phage Depolymerases and Bacterial Surface Glycan with Deep Learning Y Yang, K Dufault-Thompson, W Yan, T Cai, L Xie, X Jiang bioRxiv, 2023 | 1 | 2023 |
| Reconstruction and Analysis of Thermodynamically Constrained Models Reveal Metabolic Responses of a Deep-Sea Bacterium to Temperature Perturbations K Dufault-Thompson, C Nie, H Jian, F Wang, Y Zhang Msystems 7 (4), e00588-22, 2022 | 1 | 2022 |
| Putative host-derived insertions in the genomes of circulating SARS-CoV-2 variants Y Yang, K Dufault-Thompson, R Salgado Fontenele, X Jiang Msystems 7 (3), e00179-22, 2022 | 1 | 2022 |
| Correction to: The genome sequence of the grape phylloxera provides insights into the evolution, adaptation, and invasion routes of an iconic pest C Rispe, F Legeai, PD Nabity, R Fernández, AK Arora, P Baa-Puyoulet, ... BMC biology 18, 1-3, 2020 | 1 | 2020 |
| Annotating microbial functions with ProkFunFind K Dufault-Thompson, X Jiang Msystems, e00036-24, 2024 | | 2024 |
| Large-scale genomic survey with deep learning-based method reveals strain-level phage specificity determinants Y Yang, K Dufault-Thompson, W Yan, T Cai, L Xie, X Jiang GigaScience 13, giae017, 2024 | | 2024 |
| Putative host-derived insertions in the genome of circulating SARS-CoV-2 variants (preprint) Y Yang, K Dufault-Thompson, RS Fontenele, X Jiang | | 2022 |
| Function and Variability of Metabolic Networks K Dufault-Thompson University of Rhode Island, 2020 | | 2020 |
| FindPrimaryPairs: An efficient algorithm for predicting element-transferring reactant/product pairs in metabolic networks JL Steffensen, K Dufault-Thompson, Y Zhang Plos one 13 (2), e0192891, 2018 | | 2018 |
Ying ZhangAssociate Professor, University of Rhode IslandVerified email at uri.edu
