| Three-dimensional structural view of the central metabolic network of Thermotoga maritima Y Zhang, I Thiele, D Weekes, Z Li, L Jaroszewski, K Ginalski, AM Deacon, ... Science 325 (5947), 1544-1549, 2009 | 187 | 2009 |
| Comparative genomic analysis of the class Epsilonproteobacteria and proposed reclassification to Epsilonbacteraeota (phyl. nov.) DW Waite, I Vanwonterghem, C Rinke, DH Parks, Y Zhang, K Takai, ... Frontiers in Microbiology 8, 682, 2017 | 158 | 2017 |
| CutDB: a proteolytic event database Y Igarashi, A Eroshkin, S Gramatikova, K Gramatikoff, Y Zhang, JW Smith, ... Nucleic acids research 35 (suppl_1), D546-D549, 2006 | 137 | 2006 |
| Between order and disorder in protein structures: analysis of “dual personality” fragments in proteins Y Zhang, B Stec, A Godzik Structure 15 (9), 1141-1147, 2007 | 83 | 2007 |
| Pan-genome analyses identify lineage-and niche-specific markers of evolution and adaptation in Epsilonproteobacteria Y Zhang, SM Sievert Frontiers in microbiology 5, 2014 | 65 | 2014 |
| Global distribution of conformational states derived from redundant models in the PDB points to non-uniqueness of the protein structure PV Burra, Y Zhang, A Godzik, B Stec Proceedings of the National Academy of Sciences 106 (26), 10505-10510, 2009 | 58 | 2009 |
| Structural determinants of limited proteolysis MD Kazanov, Y Igarashi, AM Eroshkin, P Cieplak, B Ratnikov, Y Zhang, ... Journal of proteome research 10 (8), 3642-3651, 2011 | 57 | 2011 |
| PMAP: databases for analyzing proteolytic events and pathways Y Igarashi, E Heureux, KS Doctor, P Talwar, S Gramatikova, K Gramatikoff, ... Nucleic acids research 37 (suppl_1), D611-D618, 2008 | 54 | 2008 |
| The FGGY carbohydrate kinase family: insights into the evolution of functional specificities Y Zhang, O Zagnitko, I Rodionova, A Osterman, A Godzik PLoS computational biology 7 (12), e1002318, 2011 | 45 | 2011 |
| Addendum: Comparative genomic analysis of the class Epsilonproteobacteria and proposed reclassification to Epsilonbacteraeota (phyl. nov.) DW Waite, I Vanwonterghem, C Rinke, D Parks, Y Zhang, K Takai, ... Frontiers in microbiology 9, 772, 2018 | 37 | 2018 |
| From the raw bar to the bench: Bivalves as models for human health JAF Robledo, R Yadavalli, B Allam, E Pales-Espinosa, M Gerdol, S Greco, ... Developmental & Comparative Immunology, 2018 | 25 | 2018 |
| PSAMM: a portable system for the analysis of metabolic models JL Steffensen, K Dufault-Thompson, Y Zhang PLoS computational biology 12 (2), e1004732, 2016 | 24 | 2016 |
| Evolution of the natural transformation protein, ComEC, in Bacteria ZT Pimentel, Y Zhang Frontiers in Microbiology 9, 2980, 2018 | 18 | 2018 |
| 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), 1-25, 2020 | 8 | 2020 |
| Variation in genome content and predatory phenotypes between Bdellovibrio sp. NC01 isolated from soil and B. bacteriovorus type strain HD100 LE Williams, N Cullen, JA DeGiorgis, KJ Martinez, J Mellone, M Oser, ... MICROBIOLOGY 165, 1315-1330, 2019 | 7 | 2019 |
| A Simple In Vitro Gut Model for Studying the Interaction between Escherichia coli and the Intestinal Commensal Microbiota in Cecal Mucus ME Mokszycki, M Leatham-Jensen, JL Steffensen, Y Zhang, KA Krogfelt, ... Appl. Environ. Microbiol. 84 (24), e02166-18, 2018 | 4 | 2018 |
| 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), e00165-16, 2017 | 4 | 2017 |
| Using PSAMM for the Curation and Analysis of Genome-Scale Metabolic Models K Dufault-Thompson, JL Steffensen, Y Zhang Metabolic Network Reconstruction and Modeling, 131-150, 2018 | 3 | 2018 |
| Diversity and Function of the Eastern Oyster (Crassostrea virginica) Microbiome ZT Pimentel, K Dufault-Thompson, KT Russo, AK Scro, R Smolowitz, ... bioRxiv, 2020 | 1 | 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 |
