Fuyi Li
Orcid: 0000-0001-5216-3213
According to our database1,
Fuyi Li
authored at least 62 papers
between 2004 and 2024.
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Bibliography
2024
PLANNER: A Multi-Scale Deep Language Model for the Origins of Replication Site Prediction.
IEEE J. Biomed. Health Informatics, April, 2024
TransEFVP: A Two-Stage Approach for the Prediction of Human Pathogenic Variants Based on Protein Sequence Embedding Fusion.
J. Chem. Inf. Model., February, 2024
PmxPred: A data-driven approach for the identification of active polymyxin analogues against gram-negative bacteria.
Comput. Biol. Medicine, January, 2024
2023
Digerati - A multipath parallel hybrid deep learning framework for the identification of mycobacterial PE/PPE proteins.
Comput. Biol. Medicine, September, 2023
TIMER is a Siamese neural network-based framework for identifying both general and species-specific bacterial promoters.
Briefings Bioinform., July, 2023
iAMPCN: a deep-learning approach for identifying antimicrobial peptides and their functional activities.
Briefings Bioinform., July, 2023
ATTIC is an integrated approach for predicting A-to-I RNA editing sites in three species.
Briefings Bioinform., May, 2023
ResNetKhib: a novel cell type-specific tool for predicting lysine 2-hydroxyisobutylation sites via transfer learning.
Briefings Bioinform., March, 2023
VPatho: a deep learning-based two-stage approach for accurate prediction of gain-of-function and loss-of-function variants.
Briefings Bioinform., January, 2023
IEEE ACM Trans. Comput. Biol. Bioinform., 2023
Proceedings of the Advances in Neural Information Processing Systems 36: Annual Conference on Neural Information Processing Systems 2023, 2023
2022
<i>iFeatureOmega: </i> an integrative platform for engineering, visualization and analysis of features from molecular sequences, structural and ligand data sets.
Nucleic Acids Res., 2022
PROST: AlphaFold2-aware Sequence-Based Predictor to Estimate Protein Stability Changes upon Missense Mutations.
J. Chem. Inf. Model., 2022
BMC Bioinform., 2022
DeepGenGrep: a general deep learning-based predictor for multiple genomic signals and regions.
Bioinform., 2022
Critical assessment of computational tools for prokaryotic and eukaryotic promoter prediction.
Briefings Bioinform., 2022
ASPIRER: a new computational approach for identifying non-classical secreted proteins based on deep learning.
Briefings Bioinform., 2022
RBP-TSTL is a two-stage transfer learning framework for genome-scale prediction of RNA-binding proteins.
Briefings Bioinform., 2022
Positive-unlabeled learning in bioinformatics and computational biology: a brief review.
Briefings Bioinform., 2022
Clarion is a multi-label problem transformation method for identifying mRNA subcellular localizations.
Briefings Bioinform., 2022
2021
Bioinform., November, 2021
Computational identification of eukaryotic promoters based on cascaded deep capsule neural networks.
Briefings Bioinform., July, 2021
Large-scale comparative review and assessment of computational methods for anti-cancer peptide identification.
Briefings Bioinform., July, 2021
IEEE ACM Trans. Comput. Biol. Bioinform., 2021
Formator: Predicting Lysine Formylation Sites Based on the Most Distant Undersampling and Safe-Level Synthetic Minority Oversampling.
IEEE ACM Trans. Comput. Biol. Bioinform., 2021
BigFiRSt: A Software Program Using Big Data Technique for Mining Simple Sequence Repeats From Large-Scale Sequencing Data.
Frontiers Big Data, 2021
Accurate multistage prediction of protein crystallization propensity using deep-cascade forest with sequence-based features.
Briefings Bioinform., 2021
Comprehensive assessment of machine learning-based methods for predicting antimicrobial peptides.
Briefings Bioinform., 2021
Anthem: a user customised tool for fast and accurate prediction of binding between peptides and HLA class I molecules.
Briefings Bioinform., 2021
DeepTorrent: a deep learning-based approach for predicting DNA N4-methylcytosine sites.
Briefings Bioinform., 2021
Briefings Bioinform., 2021
Computational prediction and interpretation of both general and specific types of promoters in Escherichia coli by exploiting a stacked ensemble-learning framework.
Briefings Bioinform., 2021
Assessing the performance of computational predictors for estimating protein stability changes upon missense mutations.
Briefings Bioinform., 2021
Systematic evaluation of machine learning methods for identifying human-pathogen protein-protein interactions.
Briefings Bioinform., 2021
2020
A data-driven bioinformatic investigation into protein post-translational modifications.
PhD thesis, 2020
Pippin: A random forest-based method for identifying presynaptic and postsynaptic neurotoxins.
J. Bioinform. Comput. Biol., 2020
J. Bioinform. Comput. Biol., 2020
Procleave: Predicting Protease-specific Substrate Cleavage Sites by Combining Sequence and Structural Information.
Genom. Proteom. Bioinform., 2020
DeepCleave: a deep learning predictor for caspase and matrix metalloprotease substrates and cleavage sites.
Bioinform., 2020
PASSION: an ensemble neural network approach for identifying the binding sites of RBPs on circRNAs.
Bioinform., 2020
Comparative analysis and prediction of quorum-sensing peptides using feature representation learning and machine learning algorithms.
Briefings Bioinform., 2020
A comprehensive review and performance evaluation of bioinformatics tools for HLA class I peptide-binding prediction.
Briefings Bioinform., 2020
PRISMOID: a comprehensive 3D structure database for post-translational modifications and mutations with functional impact.
Briefings Bioinform., 2020
Comprehensive review and assessment of computational methods for predicting RNA post-transcriptional modification sites from RNA sequences.
Briefings Bioinform., 2020
iLearn : an integrated platform and meta-learner for feature engineering, machine-learning analysis and modeling of DNA, RNA and protein sequence data.
Briefings Bioinform., 2020
Stability of synchronized steady state solution of diffusive Lotka-Volterra predator-prey model.
Appl. Math. Lett., 2020
2019
SIMLIN: a bioinformatics tool for prediction of S-sulphenylation in the human proteome based on multi-stage ensemble-learning models.
BMC Bioinform., 2019
BMC Bioinform., 2019
MULTiPly: a novel multi-layer predictor for discovering general and specific types of promoters.
Bioinform., 2019
iProt-Sub: a comprehensive package for accurately mapping and predicting protease-specific substrates and cleavage sites.
Briefings Bioinform., 2019
Twenty years of bioinformatics research for protease-specific substrate and cleavage site prediction: a comprehensive revisit and benchmarking of existing methods.
Briefings Bioinform., 2019
Large-scale comparative assessment of computational predictors for lysine post-translational modification sites.
Briefings Bioinform., 2019
Existence of nontrivial solutions for Kirchhoff-type problems with jumping nonlinearities.
Appl. Math. Lett., 2019
2018
PROSPERous: high-throughput prediction of substrate cleavage sites for 90 proteases with improved accuracy.
Bioinform., 2018
Quokka: a comprehensive tool for rapid and accurate prediction of kinase family-specific phosphorylation sites in the human proteome.
Bioinform., 2018
iFeature: a Python package and web server for features extraction and selection from protein and peptide sequences.
Bioinform., 2018
Global solutions and blow up solutions to a class of pseudo-parabolic equations with nonlocal term.
Appl. Math. Comput., 2018
2015
GlycoMine: a machine learning-based approach for predicting N-, C- and O-linked glycosylation in the human proteome.
Bioinform., 2015
Existence of multiple positive solutions to nonhomogeneous Schrödinger-Poisson system.
Appl. Math. Comput., 2015
2012
Multiple sign-changing solutions to the Sturm-Liouville boundary value problem with resonance.
Appl. Math. Comput., 2012
2005
Existence of positive periodic solutions to nonlinear second order differential equations.
Appl. Math. Lett., 2005
2004
Multiple symmetric nonnegative solutions of second-order ordinary differential equations.
Appl. Math. Lett., 2004