Xuefeng Cui
Xuefeng Cui
Professor at Shandong University
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MRE: a web tool to suggest foreign enzymes for the biosynthesis pathway design with competing endogenous reactions in mind
H Kuwahara, M Alazmi, X Cui, X Gao
Nucleic acids research 44 (W1), W217-W225, 2016
CMsearch: simultaneous exploration of protein sequence space and structure space improves not only protein homology detection but also protein structure prediction
X Cui, Z Lu, S Wang, J Jing-Yan Wang, X Gao
Bioinformatics 32 (12), i332-i340, 2016
DNN-DTIs: Improved drug-target interactions prediction using XGBoost feature selection and deep neural network
C Chen, H Shi, Z Jiang, A Salhi, R Chen, X Cui, B Yu
Computers in Biology and Medicine 136, 104676, 2021
SHREC 2020: Classification in cryo-electron tomograms
I Gubins, ML Chaillet, G van Der Schot, RC Veltkamp, F Förster, Y Hao, ...
Computers & Graphics 91, 279-289, 2020
Homology search for genes
X Cui, T Vinař, B Brejová, D Shasha, M Li
Bioinformatics 23 (13), i97-i103, 2007
A Flexible Domain-Domain Hinge Promotes an Induced-fit Dominant Mechanism for the Loading of Guide-DNA into Argonaute Protein in Thermus thermophilus
L Zhu, H Jiang, FK Sheong, X Cui, X Gao, Y Wang, X Huang
The Journal of Physical Chemistry B 120 (10), 2709-2720, 2016
Fingerprinting protein structures effectively and efficiently
X Cui, SC Li, L He, M Li
Bioinformatics 30 (7), 949-955, 2014
Understanding the core of RNA interference: The dynamic aspects of Argonaute-mediated processes
L Zhu, H Jiang, FK Sheong, X Cui, Y Wang, X Gao, X Huang
Progress in biophysics and molecular biology 128, 39-46, 2017
Finding optimal interaction interface alignments between biological complexes
X Cui, H Naveed, X Gao
Bioinformatics 31 (12), i133-i141, 2015
Ontology-aware deep learning enables ultrafast and interpretable source tracking among sub-million microbial community samples from hundreds of niches
Y Zha, H Chong, H Qiu, K Kang, Y Dun, Z Chen, X Cui, K Ning
Genome medicine 14 (1), 43, 2022
Structure-based protein-drug affinity prediction with spatial attention mechanisms
Y Wang, Z Qiu, Q Jiao, C Chen, Z Meng, X Cui
2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM …, 2021
SBOLme: a repository of SBOL parts for metabolic engineering
H Kuwahara, X Cui, R Umarov, R Grunberg, CJ Myers, X Gao
ACS Synthetic Biology 6 (4), 732-736, 2017
CoAtGIN: Marrying Convolution and Attention for Graph-based Molecule Property Prediction
X Zhang, C Chen, Z Meng, Z Yang, H Jiang, X Cui
2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM …, 2022
VP-Detector: A 3D multi-scale dense convolutional neural network for macromolecule localization and classification in cryo-electron tomograms
Y Hao, X Wan, R Yan, Z Liu, J Li, S Zhang, X Cui, F Zhang
Computer Methods and Programs in Biomedicine 221, 106871, 2022
rzMLP-DTA: gMLP network with ReZero for sequence-based drug-target affinity prediction
Z Qiu, Q Jiao, Y Wang, C Chen, D Zhu, X Cui
2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM …, 2021
Edge-gated graph neural network for predicting protein-ligand binding affinities
Q Jiao, Z Qiu, Y Wang, C Chen, Z Yang, X Cui
2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM …, 2021
Protein Structure Idealization: How accurately is it possible to model protein structures with dihedral angles?
X Cui, SC Li, D Bu, B Alipanahi, M Li
Algorithms for Molecular Biology 8 (1), 1-13, 2013
Towards reliable automatic protein structure alignment
X Cui, SC Li, D Bu, M Li
Proceedings of the 13th International Workshop on Algorithms in …, 2013
Dilated-densenet for macromolecule classification in cryo-electron tomography
S Gao, R Han, X Zeng, X Cui, Z Liu, M Xu, F Zhang
Bioinformatics Research and Applications: 16th International Symposium …, 2020
Learning protein structural fingerprints under the label-free supervision of domain knowledge
Y Min, S Liu, C Lou, X Cui
2018 IEEE International Conference on Bioinformatics and Biomedicine (BIBM …, 2018
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