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ORCIDLydia Freddolino
Person information
- affiliation: University of Michigan, Medical School, Ann Arbor, MI, USA
- affiliation (PhD 2009): University of Illinois at Urbana-Champaign, Beckman Institute, Urbana, IL, USA
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2020 – today
- 2024
[j10]Ziying Zhang, Yaxian Cai, Biao Zhang, Wei Zheng
, P. L. Freddolino, Guijun Zhang, Xiaogen Zhou:
DEMO-EM2: assembling protein complex structures from cryo-EM maps through intertwined chain and domain fitting. Briefings Bioinform. 25(2) (2024)- [j9]Chengxin Zhang, Lydia Freddolino:
A large-scale assessment of sequence database search tools for homology-based protein function prediction. Briefings Bioinform. 25(4) (2024) - [j8]Quancheng Liu, Chengxin Zhang, Lydia Freddolino:
InterLabelGO+: unraveling label correlations in protein function prediction. Bioinform. 40(11) (2024) - 2023
- [j7]Mariano Spivak, John E. Stone, João Ribeiro, Jan Saam, P. L. Freddolino, Rafael C. Bernardi, Emad Tajkhorshid:
VMD as a Platform for Interactive Small Molecule Preparation and Visualization in Quantum and Classical Simulations. J. Chem. Inf. Model. 63(15): 4664-4678 (2023) - 2022
- [j6]Yi-Heng Zhu, Chengxin Zhang, Yan Liu, Gilbert S. Omenn, P. L. Freddolino, Dong-Jun Yu, Yang Zhang:
TripletGO: Integrating Transcript Expression Profiles with Protein Homology Inferences for Gene Function Prediction. Genom. Proteom. Bioinform. 20(5): 1013-1027 (2022) - [j5]Wei Zheng, Qiqige Wuyun, Xiaogen Zhou, Yang Li, P. L. Freddolino, Yang Zhang:
LOMETS3: integrating deep learning and profile alignment for advanced protein template recognition and function annotation. Nucleic Acids Res. 50(W1): 454-464 (2022) - 2020
- [j4]Xiaoqiong Wei, Chengxin Zhang, P. L. Freddolino, Yang Zhang, Zhiyong Lu:
Detecting Gene Ontology misannotations using taxon-specific rate ratio comparisons. Bioinform. 36(16): 4383-4388 (2020)
2010 – 2019
- 2017
- [j3]Chengxin Zhang, P. L. Freddolino, Yang Zhang:
COFACTOR: improved protein function prediction by combining structure, sequence and protein-protein interaction information. Nucleic Acids Res. 45(Webserver-Issue): W291-W299 (2017) - 2011
- [j2]Eduard Schreiner, Leonardo G. Trabuco, P. L. Freddolino, Klaus Schulten:
Stereochemical errors and their implications to molecular dynamics simulations. BMC Bioinform. 12: 190 (2011)
2000 – 2009
- 2007
- [j1]John E. Stone, James C. Phillips, P. L. Freddolino, David J. Hardy, Leonardo G. Trabuco, Klaus Schulten:
Accelerating molecular modeling applications with graphics processors. J. Comput. Chem. 28(16): 2618-2640 (2007)
Coauthor Index
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