default search action
Dongjun Yu
Dong-Jun Yu
Person information
Refine list
refinements active!
zoomed in on ?? of ?? records
view refined list in
export refined list as
showing all ?? records
2020 – today
- 2024
- [j83]Shuo Li, Yan Liu
, Long-Chen Shen
GMFGRN: a matrix factorization and graph neural network approach for gene regulatory network inference. Briefings Bioinform. 25(2) (2024) - [j82]Yi-Heng Zhu, Zi Liu, Yan Liu
ULDNA: integrating unsupervised multi-source language models with LSTM-attention network for high-accuracy protein-DNA binding site prediction. Briefings Bioinform. 25(2) (2024) - [j81]Yuchuan Zhang
MLSNet: a deep learning model for predicting transcription factor binding sites. Briefings Bioinform. 25(6) (2024) - [j80]Jia-Shun Wu
Prediction of protein-ATP binding residues using multi-view feature learning via contextual-based co-attention network. Comput. Biol. Medicine 172: 108227 (2024) - [j79]He Yan
Robust GEPSVM classifier: An efficient iterative optimization framework. Inf. Sci. 657: 119986 (2024) - [j78]Zi Liu, Chengxin Zhang, Qidi Zhang, Yang Zhang
TM-search: An Efficient and Effective Tool for Protein Structure Database Search. J. Chem. Inf. Model. 64(3): 1043-1049 (2024) - [j77]Ming Zhang, Chao Gong
FCMSTrans: Accurate Prediction of Disease-Associated nsSNPs by Utilizing Multiscale Convolution and Deep Feature Combination within a Transformer Framework. J. Chem. Inf. Model. 64(4): 1394-1406 (2024) - [j76]Zihao Yan, Fang Ge, Yan Liu, Yumeng Zhang, Fuyi Li, Jiangning Song
TransEFVP: A Two-Stage Approach for the Prediction of Human Pathogenic Variants Based on Protein Sequence Embedding Fusion. J. Chem. Inf. Model. 64(4): 1407-1418 (2024) - [j75]Ming Zhang, Xiaohua Wang
MetalTrans: A Biological Language Model-Based Approach for Predicting Disease-Associated Mutations in Protein Metal-Binding Sites. J. Chem. Inf. Model. 64(15): 6216-6229 (2024) - [j74]Dian Liu, Zi Liu
TransC-ac4C: Identification of N4-Acetylcytidine (ac4C) Sites in mRNA Using Deep Learning. IEEE ACM Trans. Comput. Biol. Bioinform. 21(5): 1403-1412 (2024) - 2023
- [j73]He Yan
Robust generalized canonical correlation analysis. Appl. Intell. 53(18): 21140-21155 (2023) - [j72]Fang Ge, Chen Li
VPatho: a deep learning-based two-stage approach for accurate prediction of gain-of-function and loss-of-function variants. Briefings Bioinform. 24(1) (2023) - [j71]Yan Liu, Guo Wei, Chen Li, Long-Chen Shen
TripletCell: a deep metric learning framework for accurate annotation of cell types at the single-cell level. Briefings Bioinform. 24(3) (2023) - [j70]Matee Ullah, Fazal Hadi, Jiangning Song
PScL-2LSAESM: bioimage-based prediction of protein subcellular localization by integrating heterogeneous features with the two-level SAE-SM and mean ensemble method. Bioinform. 39(1) (2023) - [j69]Qunzhuo Wu, Zhaohong Deng, Wei Zhang, Xiaoyong Pan
MLNGCF: circRNA-disease associations prediction with multilayer attention neural graph-based collaborative filtering. Bioinform. 39(8) (2023) - [j68]Ying Zhang, Zhikang Wang, Yiwen Zhang, Shanshan Li, Yuming Guo, Jiangning Song, Dong-Jun Yu:
Interpretable prediction models for widespread m6A RNA modification across cell lines and tissues. Bioinform. 39(12) (2023) - [j67]Zi Liu, Yi-Heng Zhu
Integrating unsupervised language model with multi-view multiple sequence alignments for high-accuracy inter-chain contact prediction. Comput. Biol. Medicine 166: 107529 (2023) - [j66]Jing Ba, Pingxin Wang, Xibei Yang, Hualong Yu, Dongjun Yu:
Glee: A granularity filter for feature selection. Eng. Appl. Artif. Intell. 122: 106080 (2023) - [j65]Yan Liu, He Yan, Long-Chen Shen
Learning Cell Annotation under Multiple Reference Datasets by Multisource Domain Adaptation. J. Chem. Inf. Model. 63(1): 397-405 (2023) - [j64]Jun Hu
Improving DNA-Binding Protein Prediction Using Three-Part Sequence-Order Feature Extraction and a Deep Neural Network Algorithm. J. Chem. Inf. Model. 63(3): 1044-1057 (2023) - [j63]Fang Ge, Muhammad Arif
MMPatho: Leveraging Multilevel Consensus and Evolutionary Information for Enhanced Missense Mutation Pathogenic Prediction. J. Chem. Inf. Model. 63(22): 7239-7257 (2023) - [j62]Yang Hua, Xiaoning Song
CPInformer for Efficient and Robust Compound-Protein Interaction Prediction. IEEE ACM Trans. Comput. Biol. Bioinform. 20(1): 285-296 (2023) - [j61]Ying Zhang
Prediction of Multiple Types of RNA Modifications via Biological Language Model. IEEE ACM Trans. Comput. Biol. Bioinform. 20(5): 3205-3214 (2023) - 2022
- [j60]Fang Ge, Ying Zhang
Prediction of disease-associated nsSNPs by integrating multi-scale ResNet models with deep feature fusion. Briefings Bioinform. 23(1) (2022) - [j59]Ke Han, Long-Chen Shen
MAResNet: predicting transcription factor binding sites by combining multi-scale bottom-up and top-down attention and residual network. Briefings Bioinform. 23(1) (2022) - [j58]Qunzhuo Wu, Zhaohong Deng, Xiaoyong Pan
MDGF-MCEC: a multi-view dual attention embedding model with cooperative ensemble learning for CircRNA-disease association prediction. Briefings Bioinform. 23(5) (2022) - [j57]Liang Rao, Ning-Xin Jia, Jun Hu
ATPdock: a template-based method for ATP-specific protein-ligand docking. Bioinform. 38(2): 556-558 (2022) - [j56]Matee Ullah, Fazal Hadi, Jiangning Song
PScL-DDCFPred: an ensemble deep learning-based approach for characterizing multiclass subcellular localization of human proteins from bioimage data. Bioinform. 38(16): 4019-4026 (2022) - [j55]He Yan
Robust ensemble method for short-term traffic flow prediction. Future Gener. Comput. Syst. 133: 395-410 (2022) - [j54]Yi-Heng Zhu
TripletGO: Integrating Transcript Expression Profiles with Protein Homology Inferences for Gene Function Prediction. Genom. Proteom. Bioinform. 20(5): 1013-1027 (2022) - [j53]Lu-Xing Zhang, He Yan, Yan Liu, Jian Xu, Jiangning Song
Enhancing Characteristic Gene Selection and Tumor Classification by the Robust Laplacian Supervised Discriminative Sparse PCA. J. Chem. Inf. Model. 62(7): 1794-1807 (2022) - [j52]Shahid Iqbal, Fang Ge, Fuyi Li
PROST: AlphaFold2-aware Sequence-Based Predictor to Estimate Protein Stability Changes upon Missense Mutations. J. Chem. Inf. Model. 62(17): 4270-4282 (2022) - [j51]Guan-Yu Zhu, Yan Liu, Peng-Hao Wang, Xibei Yang, Dong-Jun Yu
Learning Protein Embedding to Improve Protein Fold Recognition Using Deep Metric Learning. J. Chem. Inf. Model. 62(17): 4283-4291 (2022) - [j50]He Yan
Learning a robust classifier for short-term traffic state prediction. Knowl. Based Syst. 242: 108368 (2022) - [j49]Yi-Heng Zhu
Integrating unsupervised language model with triplet neural networks for protein gene ontology prediction. PLoS Comput. Biol. 18(12): 1010793 (2022) - [j48]He Yan
Robust distance metric optimization driven GEPSVM classifier for pattern classification. Pattern Recognit. 129: 108779 (2022) - [j47]Muhammad Arif, Muhammad Kabir, Saeed Ahmed, Abid Khan, Fang Ge, Adel Khelifi, Dong-Jun Yu:
DeepCPPred: A Deep Learning Framework for the Discrimination of Cell-Penetrating Peptides and Their Uptake Efficiencies. IEEE ACM Trans. Comput. Biol. Bioinform. 19(5): 2749-2759 (2022) - [j46]Jun Hu
Protein-DNA Binding Residue Prediction via Bagging Strategy and Sequence-Based Cube-Format Feature. IEEE ACM Trans. Comput. Biol. Bioinform. 19(6): 3635-3645 (2022) - [j45]He Yan
Robust Least Squares Twin Support Vector Regression With Adaptive FOA and PSO for Short-Term Traffic Flow Prediction. IEEE Trans. Intell. Transp. Syst. 23(9): 14542-14556 (2022) - 2021
- [j44]Yi-Heng Zhu, Jun Hu
Accurate multistage prediction of protein crystallization propensity using deep-cascade forest with sequence-based features. Briefings Bioinform. 22(3) (2021) - [j43]Yan Liu, Yi-Heng Zhu, Xiaoning Song, Jiangning Song
Why can deep convolutional neural networks improve protein fold recognition? A visual explanation by interpretation. Briefings Bioinform. 22(5) (2021) - [j42]Long-Chen Shen
SAResNet: self-attention residual network for predicting DNA-protein binding. Briefings Bioinform. 22(5) (2021) - [j41]Jing Xu, Fuyi Li
Comprehensive assessment of machine learning-based methods for predicting antimicrobial peptides. Briefings Bioinform. 22(5) (2021) - [j40]Ying Zhang
Leveraging the attention mechanism to improve the identification of DNA N6-methyladenine sites. Briefings Bioinform. 22(6) (2021) - [j39]Yan Liu, Ke Han, Yi-Heng Zhu, Ying Zhang
Improving protein fold recognition using triplet network and ensemble deep learning. Briefings Bioinform. 22(6) (2021) - [j38]Matee Ullah, Ke Han, Fazal Hadi, Jian Xu, Jiangning Song
PScL-HDeep: image-based prediction of protein subcellular location in human tissue using ensemble learning of handcrafted and deep learned features with two-layer feature selection. Briefings Bioinform. 22(6) (2021) - [j37]Jun Hu
TargetDBP+: Enhancing the Performance of Identifying DNA-Binding Proteins via Weighted Convolutional Features. J. Chem. Inf. Model. 61(1): 505-515 (2021) - [j36]Yang Li
Deducing high-accuracy protein contact-maps from a triplet of coevolutionary matrices through deep residual convolutional networks. PLoS Comput. Biol. 17(3) (2021) - [j35]Xiaoning Song
SP-GAN: Self-Growing and Pruning Generative Adversarial Networks. IEEE Trans. Neural Networks Learn. Syst. 32(6): 2458-2469 (2021) - 2020
- [j34]Muhammad Arif
TargetCPP: accurate prediction of cell-penetrating peptides from optimized multi-scale features using gradient boost decision tree. J. Comput. Aided Mol. Des. 34(8): 841-856 (2020) - [j33]Ming-Cai Chen, Yang Li, Yi-Heng Zhu, Fang Ge, Dong-Jun Yu
SSCpred: Single-Sequence-Based Protein Contact Prediction Using Deep Fully Convolutional Network. J. Chem. Inf. Model. 60(6): 3295-3303 (2020) - [j32]Jun Hu
TargetDBP: Accurate DNA-Binding Protein Prediction Via Sequence-Based Multi-View Feature Learning. IEEE ACM Trans. Comput. Biol. Bioinform. 17(4): 1419-1429 (2020) - [j31]Yanchao Li
ASCENT: Active Supervision for Semi-Supervised Learning. IEEE Trans. Knowl. Data Eng. 32(5): 868-882 (2020)
2010 – 2019
- 2019
- [j30]Yang Li
ResPRE: high-accuracy protein contact prediction by coupling precision matrix with deep residual neural networks. Bioinform. 35(22): 4647-4655 (2019) - [j29]Yi-Heng Zhu, Jun Hu, Xiaoning Song, Dong-Jun Yu
DNAPred: Accurate Identification of DNA-Binding Sites from Protein Sequence by Ensembled Hyperplane-Distance-Based Support Vector Machines. J. Chem. Inf. Model. 59(6): 3057-3071 (2019) - [j28]He Yan, Qiaolin Ye, Dong-Jun Yu:
Efficient and robust TWSVM classification via a minimum L1-norm distance metric criterion. Mach. Learn. 108(6): 993-1018 (2019) - [j27]Jingzheng Li, Xibei Yang, Xiaoning Song, Jinhai Li, Pingxin Wang, Dong-Jun Yu:
Neighborhood attribute reduction: a multi-criterion approach. Int. J. Mach. Learn. Cybern. 10(4): 731-742 (2019) - [j26]Xiaoning Song
Fast SRC using quadratic optimisation in downsized coefficient solution subspace. Signal Process. 161: 101-110 (2019) - [c13]Xiao-Rong Bao, Yi-Heng Zhu, Dong-Jun Yu:
DeepTF: Accurate Prediction of Transcription Factor Binding Sites by Combining Multi-scale Convolution and Long Short-Term Memory Neural Network. IScIDE (2) 2019: 126-138 - 2018
- [j25]Jun Hu, Zi Liu, Dong-Jun Yu, Yang Zhang
LS-align: an atom-level, flexible ligand structural alignment algorithm for high-throughput virtual screening. Bioinform. 34(13): 2209-2218 (2018) - [j24]Jun Hu, Yang Li, Yang Zhang
ATPbind: Accurate Protein-ATP Binding Site Prediction by Combining Sequence-Profiling and Structure-Based Comparisons. J. Chem. Inf. Model. 58(2): 501-510 (2018) - [j23]He Yan, Qiaolin Ye, Tian'an Zhang, Dong-Jun Yu, Yiqing Xu
L1-Norm GEPSVM Classifier Based on an Effective Iterative Algorithm for Classification. Neural Process. Lett. 48(1): 273-298 (2018) - [j22]He Yan, Qiaolin Ye, Tian'an Zhang, Dong-Jun Yu, Xia Yuan, Yiqing Xu
Least squares twin bounded support vector machines based on L1-norm distance metric for classification. Pattern Recognit. 74: 434-447 (2018) - [j21]Chun-Qiu Xia
A Self-Training Subspace Clustering Algorithm under Low-Rank Representation for Cancer Classification on Gene Expression Data. IEEE ACM Trans. Comput. Biol. Bioinform. 15(4): 1315-1324 (2018) - 2017
- [j20]Suping Xu, Xibei Yang, Hualong Yu, Dongjun Yu:
一种基于邻域协同表达的分类方法 (Neighborhood Collaborative Representation Based Classification Method). 计算机科学 44(9): 234-238 (2017) - [j19]Jun Hu, Yang Li, Ming Zhang, Xibei Yang, Hong-Bin Shen, Dong-Jun Yu
Predicting Protein-DNA Binding Residues by Weightedly Combining Sequence-Based Features and Boosting Multiple SVMs. IEEE ACM Trans. Comput. Biol. Bioinform. 14(6): 1389-1398 (2017) - [c12]He Yan, Qiaolin Ye, Tian'an Zhang, Dong-Jun Yu:
Efficient and Robust TWSVM Classifier Based on L1-Norm Distance Metric for Pattern Classification. ACPR 2017: 436-441 - [c11]Jun Hu, Zi Liu, Dong-Jun Yu:
Enhancing Protein-ATP and Protein-ADP Binding Sites Prediction Using Supervised Instance-Transfer Learning. ACPR 2017: 759-763 - 2016
- [j18]Jun Hu, Yang Li, Jing-Yu Yang, Hong-Bin Shen, Dong-Jun Yu
GPCR-drug interactions prediction using random forest with drug-association-matrix-based post-processing procedure. Comput. Biol. Chem. 60: 59-71 (2016) - [j17]Jun Hu, Yang Li, Wuxia Yan, Jing-Yu Yang, Hong-Bin Shen, Dong-Jun Yu:
KNN-based dynamic query-driven sample rescaling strategy for class imbalance learning. Neurocomputing 191: 363-373 (2016) - [j16]Zhisen Wei
Protein-protein interaction sites prediction by ensembling SVM and sample-weighted random forests. Neurocomputing 193: 201-212 (2016) - [j15]Hengrong Ju, Xibei Yang, Hualong Yu
Cost-sensitive rough set approach. Inf. Sci. 355-356: 282-298 (2016) - [j14]Suping Xu
Multi-label learning with label-specific feature reduction. Knowl. Based Syst. 104: 52-61 (2016) - 2015
- [j13]Xibei Yang, Yong Qi, Dong-Jun Yu, Hualong Yu
α-Dominance relation and rough sets in interval-valued information systems. Inf. Sci. 294: 334-347 (2015) - [j12]Dong-Jun Yu, Yang Li, Jun Hu, Xibei Yang, Jing-Yu Yang, Hong-Bin Shen:
Disulfide Connectivity Prediction Based on Modelled Protein 3D Structural Information and Random Forest Regression. IEEE ACM Trans. Comput. Biol. Bioinform. 12(3): 611-621 (2015) - [c10]Zhisen Wei
Predicting Protein-Protein Interactions with Weighted PSSM Histogram and Random Forests. IScIDE (2) 2015: 326-335 - 2014
- [j11]Dong-Jun Yu, Jun Hu, Hui Yan, Xibei Yang, Jing-Yu Yang, Hong-Bin Shen:
Enhancing protein-vitamin binding residues prediction by multiple heterogeneous subspace SVMs ensemble. BMC Bioinform. 15: 297 (2014) - 2013
- [j10]Dong-Jun Yu, Jun Hu, Zhenmin Tang
Improving protein-ATP binding residues prediction by boosting SVMs with random under-sampling. Neurocomputing 104: 180-190 (2013) - [j9]Dong-Jun Yu, Jun Hu, Yan Huang, Hong-Bin Shen, Yong Qi, Zhenmin Tang
TargetATPsite: A template-free method for ATP-binding sites prediction with residue evolution image sparse representation and classifier ensemble. J. Comput. Chem. 34(11): 974-985 (2013) - [j8]Dong-Jun Yu, Jun Hu, Jing Yang, Hong-Bin Shen, Jinhui Tang
Designing Template-Free Predictor for Targeting Protein-Ligand Binding Sites with Classifier Ensemble and Spatial Clustering. IEEE ACM Trans. Comput. Biol. Bioinform. 10(4): 994-1008 (2013) - 2012
- [j7]Ya-Nan Zhang, Dong-Jun Yu, Shu-Sen Li, Yong-Xian Fan, Yan Huang, Hong-Bin Shen:
Predicting protein-ATP binding sites from primary sequence through fusing bi-profile sampling of multi-view features. BMC Bioinform. 13: 118 (2012) - [c9]Dongjun Yu, Jun Hu, Xiaoning Song, Yong Qi, Zhenmin Tang
Supervised Kernel Self-Organizing Map. IScIDE 2012: 246-253
2000 – 2009
- 2009
- [j6]Xibei Yang, Tsau Young Lin, Jingyu Yang, Yan Li, Dongjun Yu:
Combination of interval-valued fuzzy set and soft set. Comput. Math. Appl. 58(3): 521-527 (2009) - [j5]Xibei Yang, Dongjun Yu, Jingyu Yang, Lihua Wei:
Dominance-based rough set approach to incomplete interval-valued information system. Data Knowl. Eng. 68(11): 1331-1347 (2009) - [j4]Xibei Yang, Dongjun Yu, Jingyu Yang, Xiaoning Song:
Difference Relation-Based Rough Set and Negative Rules in Incomplete Information System. Int. J. Uncertain. Fuzziness Knowl. Based Syst. 17(5): 649-665 (2009) - [c8]Dongjun Yu, Jianfeng Lu, Jingyu Yang:
Geodesic Discriminant Analysis on Curved Riemannian Manifold. FSKD (5) 2009: 379-383 - [c7]Dongjun Yu, Edwin R. Hancock
A Riemannian Self-Organizing Map. ICIAP 2009: 229-238 - [c6]Dongjun Yu, Edwin R. Hancock
Learning a Self-organizing Map Model on a Riemannian Manifold. IMA Conference on the Mathematics of Surfaces 2009: 375-390 - 2008
- [j3]Xibei Yang, Jingyu Yang, Chen Wu, Dongjun Yu:
Dominance-based rough set approach and knowledge reductions in incomplete ordered information system. Inf. Sci. 178(4): 1219-1234 (2008) - 2007
- [c5]Xibei Yang, Dongjun Yu, Jingyu Yang, Chen Wu:
Generalization of Soft Set Theory: From Crisp to Fuzzy Case. ICFIE 2007: 345-354 - 2006
- [c4]Yu-Jie Zheng, Xiaojun Wu, Dongjun Yu, Jingyu Yang, Weidong Wang, Yong-Zhi Li:
Feature extraction by structured stepwise nonparametric maximum margin criterion. GrC 2006: 53-56 - [c3]Dongjun Yu, Xiaojun Wu, Jing-Yu Yang:
Quantitative Measurement for Fuzzy System to Input and Rule Perturbations. ICIC (2) 2006: 159-164 - [c2]Dongjun Yu, Yong Qi, Yong-Hong Xu, Jing-Yu Yang:
Kernel-SOM Based Visualization of Financial Time Series Forecasting. ICICIC (2) 2006: 470-473 - [c1]Yu-Jie Zheng, Jing-Yu Yang, Jian Yang, Xiaojun Wu, Dongjun Yu:
A Complete and Rapid Feature Extraction Method for Face Recognition. ICPR (3) 2006: 469-472 - 2004
- [j2]Yong Xu, Jing-Yu Yang, Jianfeng Lu, Dongjun Yu:
An efficient renovation on kernel Fisher discriminant analysis and face recognition experiments. Pattern Recognit. 37(10): 2091-2094 (2004) - 2003
- [j1]Shitong Wang, Dongjun Yu, Jing-Yu Yang:
Integrating rough set theory and fuzzy neural network to discover fuzzy rules. Intell. Data Anal. 7(1): 59-73 (2003)
Coauthor Index
manage site settings
To protect your privacy, all features that rely on external API calls from your browser are turned off by default. You need to opt-in for them to become active. All settings here will be stored as cookies with your web browser. For more information see our F.A.Q.
Unpaywalled article links
Add open access links from to the list of external document links (if available).
Privacy notice: By enabling the option above, your browser will contact the API of unpaywall.org to load hyperlinks to open access articles. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Unpaywall privacy policy.
Archived links via Wayback Machine
For web page which are no longer available, try to retrieve content from the of the Internet Archive (if available).
Privacy notice: By enabling the option above, your browser will contact the API of archive.org to check for archived content of web pages that are no longer available. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Internet Archive privacy policy.
Reference lists
Add a list of references from ,
, and
to record detail pages.
load references from crossref.org and opencitations.net
Privacy notice: By enabling the option above, your browser will contact the APIs of crossref.org, opencitations.net, and semanticscholar.org to load article reference information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Crossref privacy policy and the OpenCitations privacy policy, as well as the AI2 Privacy Policy covering Semantic Scholar.
Citation data
Add a list of citing articles from and
to record detail pages.
load citations from opencitations.net
Privacy notice: By enabling the option above, your browser will contact the API of opencitations.net and semanticscholar.org to load citation information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the OpenCitations privacy policy as well as the AI2 Privacy Policy covering Semantic Scholar.
OpenAlex data
Load additional information about publications from .
Privacy notice: By enabling the option above, your browser will contact the API of openalex.org to load additional information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the information given by OpenAlex.
last updated on 2024-12-08 01:27 CET by the dblp team
all metadata released as open data under CC0 1.0 license
see also: Terms of Use | Privacy Policy | Imprint
dblp was originally created in 1993 at:
since 2018, dblp has been operated and maintained by:
the dblp computer science bibliography is funded and supported by: