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ORCIDBibTeX records: Hong-Bin Shen
@article{DBLP:journals/apin/PanS24,
author = {Meihong Pan and
Hongbin Shen},
title = {Multimodal variational contrastive learning for few-shot classification},
journal = {Appl. Intell.},
volume = {54},
number = {2},
pages = {1879--1892},
year = {2024},
url = {https://doi.org/10.1007/s10489-024-05269-5},
doi = {10.1007/S10489-024-05269-5},
timestamp = {Sat, 16 Mar 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/apin/PanS24.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/cbm/WuLFYHPS24,
author = {Hehe Wu and
Xiaojian Liu and
Yi Fang and
Yang Yang and
Yan Huang and
Xiaoyong Pan and
Hong{-}Bin Shen},
title = {Decoding protein binding landscape on circular RNAs with base-resolution
transformer models},
journal = {Comput. Biol. Medicine},
volume = {171},
pages = {108175},
year = {2024},
url = {https://doi.org/10.1016/j.compbiomed.2024.108175},
doi = {10.1016/J.COMPBIOMED.2024.108175},
timestamp = {Fri, 31 May 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/cbm/WuLFYHPS24.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/pr/PanS24,
author = {Meihong Pan and
Hong{-}Bin Shen},
title = {Cross-modal de-deviation for enhancing few-shot classification},
journal = {Pattern Recognit.},
volume = {152},
pages = {110475},
year = {2024},
url = {https://doi.org/10.1016/j.patcog.2024.110475},
doi = {10.1016/J.PATCOG.2024.110475},
timestamp = {Fri, 31 May 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/pr/PanS24.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/XiaFXPS23,
author = {Chun{-}Qiu Xia and
Shi{-}Hao Feng and
Ying Xia and
Xiaoyong Pan and
Hong{-}Bin Shen},
title = {Leveraging scaffold information to predict protein-ligand binding
affinity with an empirical graph neural network},
journal = {Briefings Bioinform.},
volume = {24},
number = {1},
year = {2023},
url = {https://doi.org/10.1093/bib/bbac603},
doi = {10.1093/BIB/BBAC603},
timestamp = {Sat, 25 Feb 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bib/XiaFXPS23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/ZhangXS23,
author = {Pei{-}Dong Zhang and
Chun{-}Qiu Xia and
Hong{-}Bin Shen},
title = {High-accuracy protein model quality assessment using attention graph
neural networks},
journal = {Briefings Bioinform.},
volume = {24},
number = {2},
year = {2023},
url = {https://doi.org/10.1093/bib/bbac614},
doi = {10.1093/BIB/BBAC614},
timestamp = {Sat, 29 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/ZhangXS23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/FangPS23,
author = {Yi Fang and
Xiaoyong Pan and
Hong{-}Bin Shen},
title = {\emph{De novo}drug design by iterative multiobjective deep reinforcement
learning with graph-based molecular quality assessment},
journal = {Bioinform.},
volume = {39},
number = {4},
year = {2023},
url = {https://doi.org/10.1093/bioinformatics/btad157},
doi = {10.1093/BIOINFORMATICS/BTAD157},
timestamp = {Sat, 08 Jun 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/FangPS23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/WuDZPCZSY23,
author = {Qunzhuo Wu and
Zhaohong Deng and
Wei Zhang and
Xiaoyong Pan and
Kup{-}Sze Choi and
Yun Zuo and
Hong{-}Bin Shen and
Dong{-}Jun Yu},
title = {{MLNGCF:} circRNA-disease associations prediction with multilayer
attention neural graph-based collaborative filtering},
journal = {Bioinform.},
volume = {39},
number = {8},
year = {2023},
url = {https://doi.org/10.1093/bioinformatics/btad499},
doi = {10.1093/BIOINFORMATICS/BTAD499},
timestamp = {Fri, 22 Mar 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/WuDZPCZSY23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/pr/PanXXS23,
author = {Meihong Pan and
Hongyi Xin and
Chun{-}Qiu Xia and
Hong{-}Bin Shen},
title = {Few-shot classification with task-adaptive semantic feature learning},
journal = {Pattern Recognit.},
volume = {141},
pages = {109594},
year = {2023},
url = {https://doi.org/10.1016/j.patcog.2023.109594},
doi = {10.1016/J.PATCOG.2023.109594},
timestamp = {Mon, 04 Mar 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/pr/PanXXS23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibm/GuoLCSY23,
author = {Kuo Guo and
Yifan Li and
Hao Chen and
Hong{-}Bin Shen and
Yang Yang},
editor = {Xingpeng Jiang and
Haiying Wang and
Reda Alhajj and
Xiaohua Hu and
Felix Engel and
Mufti Mahmud and
Nadia Pisanti and
Xuefeng Cui and
Hong Song},
title = {Isoform Function Prediction Based on Heterogeneous Graph Attention
Networks},
booktitle = {{IEEE} International Conference on Bioinformatics and Biomedicine,
{BIBM} 2023, Istanbul, Turkiye, December 5-8, 2023},
pages = {522--527},
publisher = {{IEEE}},
year = {2023},
url = {https://doi.org/10.1109/BIBM58861.2023.10386048},
doi = {10.1109/BIBM58861.2023.10386048},
timestamp = {Thu, 14 Mar 2024 16:59:09 +0100},
biburl = {https://dblp.org/rec/conf/bibm/GuoLCSY23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/LiDYPWSCWWW22,
author = {Hui Li and
Zhaohong Deng and
Haitao Yang and
Xiaoyong Pan and
Zhisheng Wei and
Hong{-}Bin Shen and
Kup{-}Sze Choi and
Lei Wang and
Shitong Wang and
Jing Wu},
title = {circRNA-binding protein site prediction based on multi-view deep learning,
subspace learning and multi-view classifier},
journal = {Briefings Bioinform.},
volume = {23},
number = {1},
year = {2022},
url = {https://doi.org/10.1093/bib/bbab394},
doi = {10.1093/BIB/BBAB394},
timestamp = {Mon, 04 Apr 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/LiDYPWSCWWW22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/TuLSY22,
author = {Yanlun Tu and
Houchao Lei and
Hong{-}Bin Shen and
Yang Yang},
title = {SIFLoc: a self-supervised pre-training method for enhancing the recognition
of protein subcellular localization in immunofluorescence microscopic
images},
journal = {Briefings Bioinform.},
volume = {23},
number = {2},
year = {2022},
url = {https://doi.org/10.1093/bib/bbab605},
doi = {10.1093/BIB/BBAB605},
timestamp = {Fri, 25 Mar 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bib/TuLSY22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/WangXSX22,
author = {Ge Wang and
Min{-}Qi Xue and
Hong{-}Bin Shen and
Ying{-}Ying Xu},
title = {Learning protein subcellular localization multi-view patterns from
heterogeneous data of imaging, sequence and networks},
journal = {Briefings Bioinform.},
volume = {23},
number = {2},
year = {2022},
url = {https://doi.org/10.1093/bib/bbab539},
doi = {10.1093/BIB/BBAB539},
timestamp = {Fri, 01 Apr 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/WangXSX22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/ZhangLZSZ22,
author = {Biao Zhang and
Dong Liu and
Yang Zhang and
Hong{-}Bin Shen and
Gui{-}Jun Zhang},
title = {Accurate flexible refinement for atomic-level protein structure using
cryo-EM density maps and deep learning},
journal = {Briefings Bioinform.},
volume = {23},
number = {2},
year = {2022},
url = {https://doi.org/10.1093/bib/bbac026},
doi = {10.1093/BIB/BBAC026},
timestamp = {Tue, 13 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bib/ZhangLZSZ22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/WuDPSCWWY22,
author = {Qunzhuo Wu and
Zhaohong Deng and
Xiaoyong Pan and
Hong{-}Bin Shen and
Kup{-}Sze Choi and
Shitong Wang and
Jing Wu and
Dong{-}Jun Yu},
title = {{MDGF-MCEC:} a multi-view dual attention embedding model with cooperative
ensemble learning for CircRNA-disease association prediction},
journal = {Briefings Bioinform.},
volume = {23},
number = {5},
year = {2022},
url = {https://doi.org/10.1093/bib/bbac289},
doi = {10.1093/BIB/BBAC289},
timestamp = {Fri, 21 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/WuDPSCWWY22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/FengXS22,
author = {Shi{-}Hao Feng and
Chun{-}Qiu Xia and
Hong{-}Bin Shen},
title = {CoCoPRED: coiled-coil protein structural feature prediction from amino
acid sequence using deep neural networks},
journal = {Bioinform.},
volume = {38},
number = {3},
pages = {720--729},
year = {2022},
url = {https://doi.org/10.1093/bioinformatics/btab744},
doi = {10.1093/BIOINFORMATICS/BTAB744},
timestamp = {Fri, 21 Jan 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/FengXS22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ZhengLYS22,
author = {Lujing Zheng and
Zhenhuan Liu and
Yang Yang and
Hong{-}Bin Shen},
title = {Accurate inference of gene regulatory interactions from spatial gene
expression with deep contrastive learning},
journal = {Bioinform.},
volume = {38},
number = {3},
pages = {746--753},
year = {2022},
url = {https://doi.org/10.1093/bioinformatics/btab718},
doi = {10.1093/BIOINFORMATICS/BTAB718},
timestamp = {Fri, 21 Jan 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/ZhengLYS22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/HuYXS22,
author = {Jin{-}Xian Hu and
Yang Yang and
Ying{-}Ying Xu and
Hong{-}Bin Shen},
title = {GraphLoc: a graph neural network model for predicting protein subcellular
localization from immunohistochemistry images},
journal = {Bioinform.},
volume = {38},
number = {21},
pages = {4941--4948},
year = {2022},
url = {https://doi.org/10.1093/bioinformatics/btac634},
doi = {10.1093/BIOINFORMATICS/BTAC634},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/HuYXS22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/cars/ZhuSSDX22,
author = {Xi{-}Liang Zhu and
Hong{-}Bin Shen and
Haitao Sun and
Li{-}Xia Duan and
Ying{-}Ying Xu},
title = {Improving segmentation and classification of renal tumors in small
sample 3D {CT} images using transfer learning with convolutional neural
networks},
journal = {Int. J. Comput. Assist. Radiol. Surg.},
volume = {17},
number = {7},
pages = {1303--1311},
year = {2022},
url = {https://doi.org/10.1007/s11548-022-02587-2},
doi = {10.1007/S11548-022-02587-2},
timestamp = {Tue, 21 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/cars/ZhuSSDX22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ncs/LiCPYS22,
author = {Jiachen Li and
Siheng Chen and
Xiaoyong Pan and
Ye Yuan and
Hong{-}Bin Shen},
title = {Cell clustering for spatial transcriptomics data with graph neural
networks},
journal = {Nat. Comput. Sci.},
volume = {2},
number = {6},
pages = {399--408},
year = {2022},
url = {https://doi.org/10.1038/s43588-022-00266-5},
doi = {10.1038/S43588-022-00266-5},
timestamp = {Mon, 15 Apr 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ncs/LiCPYS22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/XiaFXPS22,
author = {Chun{-}Qiu Xia and
Shi{-}Hao Feng and
Ying Xia and
Xiaoyong Pan and
Hong{-}Bin Shen},
title = {Fast protein structure comparison through effective representation
learning with contrastive graph neural networks},
journal = {PLoS Comput. Biol.},
volume = {18},
number = {3},
year = {2022},
url = {https://doi.org/10.1371/journal.pcbi.1009986},
doi = {10.1371/JOURNAL.PCBI.1009986},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/XiaFXPS22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/symmetry/FangPS22,
author = {Yi Fang and
Xiaoyong Pan and
Hong{-}Bin Shen},
title = {Recent Deep Learning Methodology Development for {RNA-RNA} Interaction
Prediction},
journal = {Symmetry},
volume = {14},
number = {7},
pages = {1302},
year = {2022},
url = {https://doi.org/10.3390/sym14071302},
doi = {10.3390/SYM14071302},
timestamp = {Thu, 25 Aug 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/symmetry/FangPS22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/FengXZS22,
author = {Shi{-}Hao Feng and
Chun{-}Qiu Xia and
Pei{-}Dong Zhang and
Hong{-}Bin Shen},
title = {Ab-Initio Membrane Protein Amphipathic Helix Structure Prediction
Using Deep Neural Networks},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {19},
number = {2},
pages = {795--805},
year = {2022},
url = {https://doi.org/10.1109/TCBB.2020.3029274},
doi = {10.1109/TCBB.2020.3029274},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/FengXZS22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcyb/ZhangDWCZLSYW22,
author = {Wei Zhang and
Zhaohong Deng and
Jun Wang and
Kup{-}Sze Choi and
Te Zhang and
Xiaoqing Luo and
Hong{-}Bin Shen and
Wenhao Ying and
Shitong Wang},
title = {Transductive Multiview Modeling With Interpretable Rules, Matrix Factorization,
and Cooperative Learning},
journal = {{IEEE} Trans. Cybern.},
volume = {52},
number = {10},
pages = {11226--11239},
year = {2022},
url = {https://doi.org/10.1109/TCYB.2021.3071451},
doi = {10.1109/TCYB.2021.3071451},
timestamp = {Tue, 18 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcyb/ZhangDWCZLSYW22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tetci/LouDCSWW22,
author = {Qiongdan Lou and
Zhaohong Deng and
Kup{-}Sze Choi and
Hong{-}Bin Shen and
Jun Wang and
Shitong Wang},
title = {Robust Multi-Label Relief Feature Selection Based on Fuzzy Margin
Co-Optimization},
journal = {{IEEE} Trans. Emerg. Top. Comput. Intell.},
volume = {6},
number = {2},
pages = {387--398},
year = {2022},
url = {https://doi.org/10.1109/TETCI.2020.3044679},
doi = {10.1109/TETCI.2020.3044679},
timestamp = {Wed, 27 Apr 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tetci/LouDCSWW22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2205-11798,
author = {Jiachen Li and
Ye Yuan and
Hong{-}Bin Shen},
title = {Symbolic Expression Transformer: {A} Computer Vision Approach for
Symbolic Regression},
journal = {CoRR},
volume = {abs/2205.11798},
year = {2022},
url = {https://doi.org/10.48550/arXiv.2205.11798},
doi = {10.48550/ARXIV.2205.11798},
eprinttype = {arXiv},
eprint = {2205.11798},
timestamp = {Mon, 30 May 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2205-11798.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2205-11829,
author = {Yu{-}Xuan Chen and
Dagan Feng and
Hong{-}Bin Shen},
title = {Unsupervised Difference Learning for Noisy Rigid Image Alignment},
journal = {CoRR},
volume = {abs/2205.11829},
year = {2022},
url = {https://doi.org/10.48550/arXiv.2205.11829},
doi = {10.48550/ARXIV.2205.11829},
eprinttype = {arXiv},
eprint = {2205.11829},
timestamp = {Tue, 11 Jul 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2205-11829.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/YangDPSCWWW21,
author = {Haitao Yang and
Zhaohong Deng and
Xiaoyong Pan and
Hong{-}Bin Shen and
Kup{-}Sze Choi and
Lei Wang and
Shitong Wang and
Jing Wu},
title = {RNA-binding protein recognition based on multi-view deep feature and
multi-label learning},
journal = {Briefings Bioinform.},
volume = {22},
number = {3},
year = {2021},
url = {https://doi.org/10.1093/bib/bbaa174},
doi = {10.1093/BIB/BBAA174},
timestamp = {Sat, 31 Jul 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/YangDPSCWWW21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/WuPYS21,
author = {Hehe Wu and
Xiaoyong Pan and
Yang Yang and
Hong{-}Bin Shen},
title = {Recognizing binding sites of poorly characterized RNA-binding proteins
on circular RNAs using attention Siamese network},
journal = {Briefings Bioinform.},
volume = {22},
number = {6},
year = {2021},
url = {https://doi.org/10.1093/bib/bbab279},
doi = {10.1093/BIB/BBAB279},
timestamp = {Wed, 19 Jan 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bib/WuPYS21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/PanZWSCMN21,
author = {Xiaoyong Pan and
Jasper Zuallaert and
Xi Wang and
Hong{-}Bin Shen and
Elda Posada Campos and
Denys O. Marushchak and
Wesley De Neve},
title = {ToxDL: deep learning using primary structure and domain embeddings
for assessing protein toxicity},
journal = {Bioinform.},
volume = {36},
number = {21},
pages = {5159--5168},
year = {2021},
url = {https://doi.org/10.1093/bioinformatics/btaa656},
doi = {10.1093/BIOINFORMATICS/BTAA656},
timestamp = {Tue, 01 Jun 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/PanZWSCMN21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/LinPS21,
author = {Yang Lin and
Xiaoyong Pan and
Hong{-}Bin Shen},
title = {lncLocator 2.0: a cell-line-specific subcellular localization predictor
for long non-coding RNAs with interpretable deep learning},
journal = {Bioinform.},
volume = {37},
number = {16},
pages = {2308--2316},
year = {2021},
url = {https://doi.org/10.1093/bioinformatics/btab127},
doi = {10.1093/BIOINFORMATICS/BTAB127},
timestamp = {Thu, 16 Sep 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/LinPS21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/ChenXYHFS21,
author = {Yu{-}Xuan Chen and
Rui Xie and
Yang Yang and
Lin He and
Dagan Feng and
Hong{-}Bin Shen},
title = {Fast Cryo-EM Image Alignment Algorithm Using Power Spectrum Features},
journal = {J. Chem. Inf. Model.},
volume = {61},
number = {9},
pages = {4795--4806},
year = {2021},
url = {https://doi.org/10.1021/acs.jcim.1c00745},
doi = {10.1021/ACS.JCIM.1C00745},
timestamp = {Tue, 11 Jul 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcisd/ChenXYHFS21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/LongLYS21,
author = {Wei Long and
Tiange Li and
Yang Yang and
Hong{-}Bin Shen},
title = {FlyIT: Drosophila Embryogenesis Image Annotation based on Image Tiling
and Convolutional Neural Networks},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {18},
number = {1},
pages = {194--204},
year = {2021},
url = {https://doi.org/10.1109/TCBB.2019.2935723},
doi = {10.1109/TCBB.2019.2935723},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/LongLYS21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2111-08457,
author = {Andong Li and
Zhaohong Deng and
Qiongdan Lou and
Kup{-}Sze Choi and
Hong{-}Bin Shen and
Shitong Wang},
title = {A Novel {TSK} Fuzzy System Incorporating Multi-view Collaborative
Transfer Learning for Personalized Epileptic {EEG} Detection},
journal = {CoRR},
volume = {abs/2111.08457},
year = {2021},
url = {https://arxiv.org/abs/2111.08457},
eprinttype = {arXiv},
eprint = {2111.08457},
timestamp = {Mon, 22 Nov 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2111-08457.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/WangGZYHZS20,
author = {Di Wang and
Ling Geng and
Yu{-}Jun Zhao and
Yang Yang and
Yan Huang and
Yang Zhang and
Hong{-}Bin Shen},
title = {Artificial intelligence-based multi-objective optimization protocol
for protein structure refinement},
journal = {Bioinform.},
volume = {36},
number = {2},
pages = {437--448},
year = {2020},
url = {https://doi.org/10.1093/bioinformatics/btz544},
doi = {10.1093/BIOINFORMATICS/BTZ544},
timestamp = {Sat, 30 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/WangGZYHZS20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/XuSM20,
author = {Ying{-}Ying Xu and
Hong{-}Bin Shen and
Robert F. Murphy},
title = {Learning complex subcellular distribution patterns of proteins via
analysis of immunohistochemistry images},
journal = {Bioinform.},
volume = {36},
number = {6},
pages = {1908--1914},
year = {2020},
url = {https://doi.org/10.1093/bioinformatics/btz844},
doi = {10.1093/BIOINFORMATICS/BTZ844},
timestamp = {Sat, 30 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/XuSM20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/Long0S20,
author = {Wei Long and
Yang Yang and
Hong{-}Bin Shen},
title = {ImPLoc: a multi-instance deep learning model for the prediction of
protein subcellular localization based on immunohistochemistry images},
journal = {Bioinform.},
volume = {36},
number = {7},
pages = {2244--2250},
year = {2020},
url = {https://doi.org/10.1093/bioinformatics/btz909},
doi = {10.1093/BIOINFORMATICS/BTZ909},
timestamp = {Fri, 25 Dec 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/Long0S20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/XiaPS20,
author = {Chun{-}Qiu Xia and
Xiaoyong Pan and
Hong{-}Bin Shen},
title = {Protein-ligand binding residue prediction enhancement through hybrid
deep heterogeneous learning of sequence and structure data},
journal = {Bioinform.},
volume = {36},
number = {10},
pages = {3018--3027},
year = {2020},
url = {https://doi.org/10.1093/bioinformatics/btaa110},
doi = {10.1093/BIOINFORMATICS/BTAA110},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/XiaPS20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/XieCCYS20,
author = {Rui Xie and
Yu{-}Xuan Chen and
Jia{-}Ming Cai and
Yang Yang and
Hong{-}Bin Shen},
title = {{SPREAD:} {A} Fully Automated Toolkit for Single-Particle Cryogenic
Electron Microscopy Data 3D Reconstruction with Image-Network-Aided
Orientation Assignment},
journal = {J. Chem. Inf. Model.},
volume = {60},
number = {5},
pages = {2614--2625},
year = {2020},
url = {https://doi.org/10.1021/acs.jcim.9b01099},
doi = {10.1021/ACS.JCIM.9B01099},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcisd/XieCCYS20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/ZhangPS20,
author = {Wei{-}Xun Zhang and
Xiaoyong Pan and
Hong{-}Bin Shen},
title = {Signal-3L 3.0: Improving Signal Peptide Prediction through Combining
Attention Deep Learning with Window-Based Scoring},
journal = {J. Chem. Inf. Model.},
volume = {60},
number = {7},
pages = {3679--3686},
year = {2020},
url = {https://doi.org/10.1021/acs.jcim.0c00401},
doi = {10.1021/ACS.JCIM.0C00401},
timestamp = {Wed, 01 Sep 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcisd/ZhangPS20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/pr/PanS20,
author = {Xiaoyong Pan and
Hong{-}Bin Shen},
title = {Scoring disease-microRNA associations by integrating disease hierarchy
into graph convolutional networks},
journal = {Pattern Recognit.},
volume = {105},
pages = {107385},
year = {2020},
url = {https://doi.org/10.1016/j.patcog.2020.107385},
doi = {10.1016/J.PATCOG.2020.107385},
timestamp = {Wed, 15 Jul 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/pr/PanS20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibm/HuCZ0S20,
author = {Rui Hu and
Jia{-}Ming Cai and
Wangjie Zheng and
Yang Yang and
Hong{-}Bin Shen},
editor = {Taesung Park and
Young{-}Rae Cho and
Xiaohua Hu and
Illhoi Yoo and
Hyun Goo Woo and
Jianxin Wang and
Julio C. Facelli and
Seungyoon Nam and
Mingon Kang},
title = {NiuEM: {A} Nested-iterative Unsupervised Learning Model for Single-particle
Cryo-EM Image Processing},
booktitle = {{IEEE} International Conference on Bioinformatics and Biomedicine,
{BIBM} 2020, Virtual Event, South Korea, December 16-19, 2020},
pages = {583--588},
publisher = {{IEEE}},
year = {2020},
url = {https://doi.org/10.1109/BIBM49941.2020.9313189},
doi = {10.1109/BIBM49941.2020.9313189},
timestamp = {Fri, 09 Apr 2021 17:11:13 +0200},
biburl = {https://dblp.org/rec/conf/bibm/HuCZ0S20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/YangZFS19,
author = {Yang Yang and
Mingyu Zhou and
Qingwei Fang and
Hong{-}Bin Shen},
title = {AnnoFly: annotating Drosophila embryonic images based on an attention-enhanced
{RNN} model},
journal = {Bioinform.},
volume = {35},
number = {16},
pages = {2834--2842},
year = {2019},
url = {https://doi.org/10.1093/bioinformatics/bty1064},
doi = {10.1093/BIOINFORMATICS/BTY1064},
timestamp = {Sat, 30 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/YangZFS19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/chinaf/PanFJS19,
author = {Xiaoyong Pan and
Yong{-}Xian Fan and
Jue Jia and
Hong{-}Bin Shen},
title = {Identifying RNA-binding proteins using multi-label deep learning},
journal = {Sci. China Inf. Sci.},
volume = {62},
number = {1},
pages = {19103:1--19103:3},
year = {2019},
url = {https://doi.org/10.1007/s11432-018-9558-2},
doi = {10.1007/S11432-018-9558-2},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/chinaf/PanFJS19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/YinZYHS19,
author = {Shuo Yin and
Biao Zhang and
Yang Yang and
Yan Huang and
Hong{-}Bin Shen},
title = {Clustering Enhancement of Noisy Cryo-Electron Microscopy Single-Particle
Images with a Network Structural Similarity Metric},
journal = {J. Chem. Inf. Model.},
volume = {59},
number = {4},
pages = {1658--1667},
year = {2019},
url = {https://doi.org/10.1021/acs.jcim.8b00853},
doi = {10.1021/ACS.JCIM.8B00853},
timestamp = {Tue, 01 Jun 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcisd/YinZYHS19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/YangFS19,
author = {Yang Yang and
Qingwei Fang and
Hong{-}Bin Shen},
title = {Predicting gene regulatory interactions based on spatial gene expression
data and deep learning},
journal = {PLoS Comput. Biol.},
volume = {15},
number = {9},
year = {2019},
url = {https://doi.org/10.1371/journal.pcbi.1007324},
doi = {10.1371/JOURNAL.PCBI.1007324},
timestamp = {Sat, 25 Dec 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/YangFS19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/access/ZhangYS18,
author = {Hanjin Zhang and
Yang Yang and
Hong{-}Bin Shen},
title = {Line Junction Detection Without Prior-Delineation of Curvilinear Structure
in Biomedical Images},
journal = {{IEEE} Access},
volume = {6},
pages = {2016--2027},
year = {2018},
url = {https://doi.org/10.1109/ACCESS.2017.2781280},
doi = {10.1109/ACCESS.2017.2781280},
timestamp = {Wed, 04 Jul 2018 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/access/ZhangYS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/access/ZhangYS18a,
author = {Hanjin Zhang and
Yang Yang and
Hong{-}Bin Shen},
title = {Detection of Curvilinear Structure in Images by a Multi-Centered Hough
Forest Method},
journal = {{IEEE} Access},
volume = {6},
pages = {22684--22694},
year = {2018},
url = {https://doi.org/10.1109/ACCESS.2018.2823726},
doi = {10.1109/ACCESS.2018.2823726},
timestamp = {Wed, 04 Jul 2018 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/access/ZhangYS18a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/YangS18,
author = {Jing Yang and
Hong{-}Bin Shen},
title = {MemBrain-contact 2.0: a new two-stage machine learning model for the
prediction enhancement of transmembrane protein residue contacts in
the full chain},
journal = {Bioinform.},
volume = {34},
number = {2},
pages = {230--238},
year = {2018},
url = {https://doi.org/10.1093/bioinformatics/btx593},
doi = {10.1093/BIOINFORMATICS/BTX593},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/YangS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/CaoPYHS18,
author = {Zhen Cao and
Xiaoyong Pan and
Yang Yang and
Yan Huang and
Hong{-}Bin Shen},
title = {The lncLocator: a subcellular localization predictor for long non-coding
RNAs based on a stacked ensemble classifier},
journal = {Bioinform.},
volume = {34},
number = {13},
pages = {2185--2194},
year = {2018},
url = {https://doi.org/10.1093/bioinformatics/bty085},
doi = {10.1093/BIOINFORMATICS/BTY085},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/CaoPYHS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/PanS18,
author = {Xiaoyong Pan and
Hong{-}Bin Shen},
title = {Predicting RNA-protein binding sites and motifs through combining
local and global deep convolutional neural networks},
journal = {Bioinform.},
volume = {34},
number = {20},
pages = {3427--3436},
year = {2018},
url = {https://doi.org/10.1093/bioinformatics/bty364},
doi = {10.1093/BIOINFORMATICS/BTY364},
timestamp = {Sat, 30 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/PanS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/YangFQXS18,
author = {Yang Yang and
Xiaofeng Fu and
Wenhao Qu and
Yiqun Xiao and
Hong{-}Bin Shen},
title = {MiRGOFS: a GO-based functional similarity measurement for miRNAs,
with applications to the prediction of miRNA subcellular localization
and miRNA-disease association},
journal = {Bioinform.},
volume = {34},
number = {20},
pages = {3547--3556},
year = {2018},
url = {https://doi.org/10.1093/bioinformatics/bty343},
doi = {10.1093/BIOINFORMATICS/BTY343},
timestamp = {Sat, 30 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/YangFQXS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/fcsc/XuYS18,
author = {Ying{-}Ying Xu and
Li{-}Xiu Yao and
Hong{-}Bin Shen},
title = {Bioimage-based protein subcellular location prediction: a comprehensive
review},
journal = {Frontiers Comput. Sci.},
volume = {12},
number = {1},
pages = {26--39},
year = {2018},
url = {https://doi.org/10.1007/s11704-016-6309-5},
doi = {10.1007/S11704-016-6309-5},
timestamp = {Mon, 19 Feb 2018 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/fcsc/XuYS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijon/ZhiMS18,
author = {Xu{-}Hao Zhi and
Shu Meng and
Hong{-}Bin Shen},
title = {High density cell tracking with accurate centroid detections and active
area-based tracklet clustering},
journal = {Neurocomputing},
volume = {295},
pages = {86--97},
year = {2018},
url = {https://doi.org/10.1016/j.neucom.2018.01.070},
doi = {10.1016/J.NEUCOM.2018.01.070},
timestamp = {Fri, 18 May 2018 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijon/ZhiMS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijon/PanS18,
author = {Xiaoyong Pan and
Hong{-}Bin Shen},
title = {Learning distributed representations of {RNA} sequences and its application
for predicting RNA-protein binding sites with a convolutional neural
network},
journal = {Neurocomputing},
volume = {305},
pages = {51--58},
year = {2018},
url = {https://doi.org/10.1016/j.neucom.2018.04.036},
doi = {10.1016/J.NEUCOM.2018.04.036},
timestamp = {Tue, 16 Jun 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijon/PanS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/YangWZS18,
author = {Yu{-}Jiao Yang and
Shuai Wang and
Biao Zhang and
Hong{-}Bin Shen},
title = {Resolution Measurement from a Single Reconstructed Cryo-EM Density
Map with Multiscale Spectral Analysis},
journal = {J. Chem. Inf. Model.},
volume = {58},
number = {6},
pages = {1303--1311},
year = {2018},
url = {https://doi.org/10.1021/acs.jcim.8b00149},
doi = {10.1021/ACS.JCIM.8B00149},
timestamp = {Tue, 01 Jun 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcisd/YangWZS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/pr/ZhiS18,
author = {Xu{-}Hao Zhi and
Hong{-}Bin Shen},
title = {Saliency driven region-edge-based top down level set evolution reveals
the asynchronous focus in image segmentation},
journal = {Pattern Recognit.},
volume = {80},
pages = {241--255},
year = {2018},
url = {https://doi.org/10.1016/j.patcog.2018.03.010},
doi = {10.1016/J.PATCOG.2018.03.010},
timestamp = {Sat, 25 Dec 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/pr/ZhiS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/ShaoLXSZ18,
author = {Wei Shao and
Mingxia Liu and
Ying{-}Ying Xu and
Hong{-}Bin Shen and
Daoqiang Zhang},
title = {An Organelle Correlation-Guided Feature Selection Approach for Classifying
Multi-Label Subcellular Bio-Images},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {15},
number = {3},
pages = {828--838},
year = {2018},
url = {https://doi.org/10.1109/TCBB.2017.2677907},
doi = {10.1109/TCBB.2017.2677907},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/ShaoLXSZ18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibm/Li0S18,
author = {Tiange Li and
Yang Yang and
Hong{-}Bin Shen},
editor = {Huiru Jane Zheng and
Zoraida Callejas and
David Griol and
Haiying Wang and
Xiaohua Hu and
Harald H. H. W. Schmidt and
Jan Baumbach and
Julie Dickerson and
Le Zhang},
title = {{HMIML:} Hierarchical Multi-Instance Multi-Label Learning of Drosophila
Embryogenesis Images Using Convolutional Neural Networks},
booktitle = {{IEEE} International Conference on Bioinformatics and Biomedicine,
{BIBM} 2018, Madrid, Spain, December 3-6, 2018},
pages = {907--912},
publisher = {{IEEE} Computer Society},
year = {2018},
url = {https://doi.ieeecomputersociety.org/10.1109/BIBM.2018.8621435},
doi = {10.1109/BIBM.2018.8621435},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/bibm/Li0S18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibm/Ji0S18,
author = {Guowei Ji and
Yang Yang and
Hong{-}Bin Shen},
editor = {Huiru Jane Zheng and
Zoraida Callejas and
David Griol and
Haiying Wang and
Xiaohua Hu and
Harald H. H. W. Schmidt and
Jan Baumbach and
Julie Dickerson and
Le Zhang},
title = {IterVM: An Iterative Model for Single-Particle Cryo-EM Image Clustering
Based on Variational Autoencoder and Multi-Reference Alignment},
booktitle = {{IEEE} International Conference on Bioinformatics and Biomedicine,
{BIBM} 2018, Madrid, Spain, December 3-6, 2018},
pages = {999--1002},
publisher = {{IEEE} Computer Society},
year = {2018},
url = {https://doi.ieeecomputersociety.org/10.1109/BIBM.2018.8621474},
doi = {10.1109/BIBM.2018.8621474},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/bibm/Ji0S18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/icdm/XiaoC0ZS18,
author = {Yiqun Xiao and
Jiaxun Cai and
Yang Yang and
Hai Zhao and
Hong{-}Bin Shen},
title = {Prediction of MicroRNA Subcellular Localization by Using a Sequence-to-Sequence
Model},
booktitle = {{IEEE} International Conference on Data Mining, {ICDM} 2018, Singapore,
November 17-20, 2018},
pages = {1332--1337},
publisher = {{IEEE} Computer Society},
year = {2018},
url = {https://doi.org/10.1109/ICDM.2018.00181},
doi = {10.1109/ICDM.2018.00181},
timestamp = {Thu, 21 Mar 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/icdm/XiaoC0ZS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ZhouYS17,
author = {Hang Zhou and
Yang Yang and
Hong{-}Bin Shen},
title = {Hum-mPLoc 3.0: prediction enhancement of human protein subcellular
localization through modeling the hidden correlations of gene ontology
and functional domain features},
journal = {Bioinform.},
volume = {33},
number = {6},
pages = {843--853},
year = {2017},
url = {https://doi.org/10.1093/bioinformatics/btw723},
doi = {10.1093/BIOINFORMATICS/BTW723},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/ZhouYS17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/HeMWSZ17,
author = {Baoji He and
S. M. Mortuza and
Yanting Wang and
Hong{-}Bin Shen and
Yang Zhang},
title = {NeBcon: protein contact map prediction using neural network training
coupled with na{\"{\i}}ve Bayes classifiers},
journal = {Bioinform.},
volume = {33},
number = {15},
pages = {2296--2306},
year = {2017},
url = {https://doi.org/10.1093/bioinformatics/btx164},
doi = {10.1093/BIOINFORMATICS/BTX164},
timestamp = {Mon, 26 Jun 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/HeMWSZ17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/PanS17,
author = {Xiaoyong Pan and
Hong{-}Bin Shen},
title = {RNA-protein binding motifs mining with a new hybrid deep learning
based cross-domain knowledge integration approach},
journal = {{BMC} Bioinform.},
volume = {18},
number = {1},
pages = {136:1--136:14},
year = {2017},
url = {https://doi.org/10.1186/s12859-017-1561-8},
doi = {10.1186/S12859-017-1561-8},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/PanS17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/fcsc/ShaoDSZ17,
author = {Wei Shao and
Yi Ding and
Hong{-}Bin Shen and
Daoqiang Zhang},
title = {Deep model-based feature extraction for predicting protein subcellular
localizations from bio-images},
journal = {Frontiers Comput. Sci.},
volume = {11},
number = {2},
pages = {243--252},
year = {2017},
url = {https://doi.org/10.1007/s11704-017-6538-2},
doi = {10.1007/S11704-017-6538-2},
timestamp = {Wed, 01 Aug 2018 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/fcsc/ShaoDSZ17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/ZhangS17,
author = {Yi{-}Ze Zhang and
Hong{-}Bin Shen},
title = {Signal-3L 2.0: {A} Hierarchical Mixture Model for Enhancing Protein
Signal Peptide Prediction by Incorporating Residue-Domain Cross-Level
Features},
journal = {J. Chem. Inf. Model.},
volume = {57},
number = {4},
pages = {988--999},
year = {2017},
url = {https://doi.org/10.1021/acs.jcim.6b00484},
doi = {10.1021/ACS.JCIM.6B00484},
timestamp = {Fri, 06 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcisd/ZhangS17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/HuLZYSY17,
author = {Jun Hu and
Yang Li and
Ming Zhang and
Xibei Yang and
Hong{-}Bin Shen and
Dong{-}Jun Yu},
title = {Predicting Protein-DNA Binding Residues by Weightedly Combining Sequence-Based
Features and Boosting Multiple SVMs},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {14},
number = {6},
pages = {1389--1398},
year = {2017},
url = {https://doi.org/10.1109/TCBB.2016.2616469},
doi = {10.1109/TCBB.2016.2616469},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/HuLZYSY17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcyb/CheungDS17,
author = {Ngaam J. Cheung and
Xueming Ding and
Hong{-}Bin Shen},
title = {A Nonhomogeneous Cuckoo Search Algorithm Based on Quantum Mechanism
for Real Parameter Optimization},
journal = {{IEEE} Trans. Cybern.},
volume = {47},
number = {2},
pages = {391--402},
year = {2017},
url = {https://doi.org/10.1109/TCYB.2016.2517140},
doi = {10.1109/TCYB.2016.2517140},
timestamp = {Fri, 22 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcyb/CheungDS17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/acpr/Zhang0S17,
author = {Hanjin Zhang and
Yang Yang and
Hong{-}Bin Shen},
title = {Detection of Curvilinear Centerline by Using Hough Voting},
booktitle = {4th {IAPR} Asian Conference on Pattern Recognition, {ACPR} 2017, Nanjing,
China, November 26-29, 2017},
pages = {120--125},
publisher = {{IEEE} Computer Society},
year = {2017},
url = {https://doi.org/10.1109/ACPR.2017.50},
doi = {10.1109/ACPR.2017.50},
timestamp = {Wed, 16 Oct 2019 14:14:56 +0200},
biburl = {https://dblp.org/rec/conf/acpr/Zhang0S17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/acpr/HuX0S17,
author = {Jin{-}Xian Hu and
Ying{-}Ying Xu and
Yang Yang and
Hong{-}Bin Shen},
title = {Deep Learning-Based Classification of Protein Subcellular Localization
from Immunohistochemistry Images},
booktitle = {4th {IAPR} Asian Conference on Pattern Recognition, {ACPR} 2017, Nanjing,
China, November 26-29, 2017},
pages = {599--604},
publisher = {{IEEE} Computer Society},
year = {2017},
url = {https://doi.org/10.1109/ACPR.2017.125},
doi = {10.1109/ACPR.2017.125},
timestamp = {Tue, 01 Jan 2019 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/acpr/HuX0S17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bmei/GengS17,
author = {Ling Geng and
Hong{-}Bin Shen},
editor = {Qingli Li and
Lipo Wang and
Mei Zhou and
Li Sun and
Song Qiu and
Hongying Liu},
title = {A protein structure refinement method using bi-objective particle
swarm optimization algorithm},
booktitle = {10th International Congress on Image and Signal Processing, BioMedical
Engineering and Informatics, {CISP-BMEI} 2017, Shanghai, China, October
14-16, 2017},
pages = {1--5},
publisher = {{IEEE}},
year = {2017},
url = {https://doi.org/10.1109/CISP-BMEI.2017.8302277},
doi = {10.1109/CISP-BMEI.2017.8302277},
timestamp = {Thu, 13 Feb 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/bmei/GengS17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bmei/YangS17,
author = {Yu{-}Jiao Yang and
Hong{-}Bin Shen},
editor = {Qingli Li and
Lipo Wang and
Mei Zhou and
Li Sun and
Song Qiu and
Hongying Liu},
title = {Resolution determination method of a cryo-EM density map based on
multi-scale spectral signal to noise analysis},
booktitle = {10th International Congress on Image and Signal Processing, BioMedical
Engineering and Informatics, {CISP-BMEI} 2017, Shanghai, China, October
14-16, 2017},
pages = {1--5},
publisher = {{IEEE}},
year = {2017},
url = {https://doi.org/10.1109/CISP-BMEI.2017.8302304},
doi = {10.1109/CISP-BMEI.2017.8302304},
timestamp = {Wed, 07 Mar 2018 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/bmei/YangS17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/XuYS16,
author = {Ying{-}Ying Xu and
Fan Yang and
Hong{-}Bin Shen},
title = {Incorporating organelle correlations into semi-supervised learning
for protein subcellular localization prediction},
journal = {Bioinform.},
volume = {32},
number = {14},
pages = {2184--2192},
year = {2016},
url = {https://doi.org/10.1093/bioinformatics/btw219},
doi = {10.1093/BIOINFORMATICS/BTW219},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/XuYS16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/YangJZS16,
author = {Jing Yang and
Qi{-}Yu Jin and
Biao Zhang and
Hong{-}Bin Shen},
title = {R\({}_{\mbox{2}}\)C: improving \emph{ab initio} residue contact map
prediction using dynamic fusion strategy and Gaussian noise filter},
journal = {Bioinform.},
volume = {32},
number = {16},
pages = {2435--2443},
year = {2016},
url = {https://doi.org/10.1093/bioinformatics/btw181},
doi = {10.1093/BIOINFORMATICS/BTW181},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/YangJZS16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/candc/HuLYSY16,
author = {Jun Hu and
Yang Li and
Jing{-}Yu Yang and
Hong{-}Bin Shen and
Dong{-}Jun Yu},
title = {GPCR-drug interactions prediction using random forest with drug-association-matrix-based
post-processing procedure},
journal = {Comput. Biol. Chem.},
volume = {60},
pages = {59--71},
year = {2016},
url = {https://doi.org/10.1016/j.compbiolchem.2015.11.007},
doi = {10.1016/J.COMPBIOLCHEM.2015.11.007},
timestamp = {Tue, 29 Mar 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/candc/HuLYSY16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijon/HuLYYSY16,
author = {Jun Hu and
Yang Li and
Wuxia Yan and
Jing{-}Yu Yang and
Hong{-}Bin Shen and
Dong{-}Jun Yu},
title = {KNN-based dynamic query-driven sample rescaling strategy for class
imbalance learning},
journal = {Neurocomputing},
volume = {191},
pages = {363--373},
year = {2016},
url = {https://doi.org/10.1016/j.neucom.2016.01.043},
doi = {10.1016/J.NEUCOM.2016.01.043},
timestamp = {Tue, 29 Mar 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijon/HuLYYSY16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijon/WeiHYSY16,
author = {Zhisen Wei and
Ke Han and
Jing{-}Yu Yang and
Hong{-}Bin Shen and
Dong{-}Jun Yu},
title = {Protein-protein interaction sites prediction by ensembling {SVM} and
sample-weighted random forests},
journal = {Neurocomputing},
volume = {193},
pages = {201--212},
year = {2016},
url = {https://doi.org/10.1016/j.neucom.2016.02.022},
doi = {10.1016/J.NEUCOM.2016.02.022},
timestamp = {Tue, 01 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijon/WeiHYSY16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/CheungDS16,
author = {Ngaam J. Cheung and
Xueming Ding and
Hong{-}Bin Shen},
title = {Protein folds recognized by an intelligent predictor based-on evolutionary
and structural information},
journal = {J. Comput. Chem.},
volume = {37},
number = {4},
pages = {426--436},
year = {2016},
url = {https://doi.org/10.1002/jcc.24232},
doi = {10.1002/JCC.24232},
timestamp = {Wed, 01 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/CheungDS16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jota/CheungDS16,
author = {Ngaam J. Cheung and
Xueming Ding and
Hong{-}Bin Shen},
title = {A Non-homogeneous Firefly Algorithm and Its Convergence Analysis},
journal = {J. Optim. Theory Appl.},
volume = {170},
number = {2},
pages = {616--628},
year = {2016},
url = {https://doi.org/10.1007/s10957-016-0875-4},
doi = {10.1007/S10957-016-0875-4},
timestamp = {Tue, 07 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jota/CheungDS16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/YinXS16,
author = {Xi Yin and
Ying{-}Ying Xu and
Hong{-}Bin Shen},
title = {Enhancing the Prediction of Transmembrane {\(\beta\)}-Barrel Segments
with Chain Learning and Feature Sparse Representation},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {13},
number = {6},
pages = {1016--1026},
year = {2016},
url = {https://doi.org/10.1109/TCBB.2016.2528000},
doi = {10.1109/TCBB.2016.2528000},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/YinXS16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bmei/ZhangS16,
author = {Yi{-}Ze Zhang and
Hong{-}Bin Shen},
editor = {Yaoli Wang and
Jiancheng An and
Lipo Wang and
Qingli Li and
Gaowei Van and
Qing Chang},
title = {Improve signal peptide prediction by using functional domain information},
booktitle = {9th International Congress on Image and Signal Processing, BioMedical
Engineering and Informatics, {CISP-BMEI} 2016, Datong, China, October
15-17, 2016},
pages = {1814--1819},
publisher = {{IEEE}},
year = {2016},
url = {https://doi.org/10.1109/CISP-BMEI.2016.7853012},
doi = {10.1109/CISP-BMEI.2016.7853012},
timestamp = {Wed, 16 Oct 2019 14:14:50 +0200},
biburl = {https://dblp.org/rec/conf/bmei/ZhangS16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ccpr/ZhouYS16,
author = {Hang Zhou and
Yang Yang and
Hong{-}Bin Shen},
editor = {Tieniu Tan and
Xuelong Li and
Xilin Chen and
Jie Zhou and
Jian Yang and
Hong Cheng},
title = {A New Subcellular Localization Predictor for Human Proteins Considering
the Correlation of Annotation Features and Protein Multi-localization},
booktitle = {Pattern Recognition - 7th Chinese Conference, {CCPR} 2016, Chengdu,
China, November 5-7, 2016, Proceedings, Part {II}},
series = {Communications in Computer and Information Science},
volume = {663},
pages = {499--512},
year = {2016},
url = {https://doi.org/10.1007/978-981-10-3005-5\_41},
doi = {10.1007/978-981-10-3005-5\_41},
timestamp = {Tue, 15 Feb 2022 14:35:28 +0100},
biburl = {https://dblp.org/rec/conf/ccpr/ZhouYS16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/apin/CheungDS15,
author = {Ngaam J. Cheung and
Xueming Ding and
Hong{-}Bin Shen},
title = {A supervised particle swarm algorithm for real-parameter optimization},
journal = {Appl. Intell.},
volume = {43},
number = {4},
pages = {825--839},
year = {2015},
url = {https://doi.org/10.1007/s10489-015-0683-9},
doi = {10.1007/S10489-015-0683-9},
timestamp = {Wed, 17 May 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/apin/CheungDS15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/JingS15,
author = {Peng{-}Jie Jing and
Hong{-}Bin Shen},
title = {{MACOED:} a multi-objective ant colony optimization algorithm for
{SNP} epistasis detection in genome-wide association studies},
journal = {Bioinform.},
volume = {31},
number = {5},
pages = {634--641},
year = {2015},
url = {https://doi.org/10.1093/bioinformatics/btu702},
doi = {10.1093/BIOINFORMATICS/BTU702},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/JingS15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/XuYZS15,
author = {Ying{-}Ying Xu and
Fan Yang and
Yang Zhang and
Hong{-}Bin Shen},
title = {Bioimaging-based detection of mislocalized proteins in human cancers
by semi-supervised learning},
journal = {Bioinform.},
volume = {31},
number = {7},
pages = {1111--1119},
year = {2015},
url = {https://doi.org/10.1093/bioinformatics/btu772},
doi = {10.1093/BIOINFORMATICS/BTU772},
timestamp = {Tue, 04 Jul 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/XuYZS15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/YangHJZS15,
author = {Jing Yang and
Bao{-}Ji He and
Richard Jang and
Yang Zhang and
Hong{-}Bin Shen},
title = {Accurate disulfide-bonding network predictions improve \emph{ab initio}
structure prediction of cysteine-rich proteins},
journal = {Bioinform.},
volume = {31},
number = {23},
pages = {3773--3781},
year = {2015},
url = {https://doi.org/10.1093/bioinformatics/btv459},
doi = {10.1093/BIOINFORMATICS/BTV459},
timestamp = {Mon, 26 Jun 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/YangHJZS15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/eor/CheungXDS15,
author = {Ngaam J. Cheung and
Zhenkai Xu and
Xueming Ding and
Hong{-}Bin Shen},
title = {Modeling nonlinear dynamic biological systems with human-readable
fuzzy rules optimized by convergent heterogeneous particle swarm},
journal = {Eur. J. Oper. Res.},
volume = {247},
number = {2},
pages = {349--358},
year = {2015},
url = {https://doi.org/10.1016/j.ejor.2015.03.047},
doi = {10.1016/J.EJOR.2015.03.047},
timestamp = {Fri, 21 Feb 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/eor/CheungXDS15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/XiaoS15,
author = {Feng Xiao and
Hong{-}Bin Shen},
title = {Prediction Enhancement of Residue Real-Value Relative Accessible Surface
Area in Transmembrane Helical Proteins by Solving the Output Preference
Problem of Machine Learning-Based Predictors},
journal = {J. Chem. Inf. Model.},
volume = {55},
number = {11},
pages = {2464--2474},
year = {2015},
url = {https://doi.org/10.1021/acs.jcim.5b00246},
doi = {10.1021/ACS.JCIM.5B00246},
timestamp = {Fri, 06 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcisd/XiaoS15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/YuLHYYS15,
author = {Dong{-}Jun Yu and
Yang Li and
Jun Hu and
Xibei Yang and
Jing{-}Yu Yang and
Hong{-}Bin Shen},
title = {Disulfide Connectivity Prediction Based on Modelled Protein 3D Structural
Information and Random Forest Regression},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {12},
number = {3},
pages = {611--621},
year = {2015},
url = {https://doi.org/10.1109/TCBB.2014.2359451},
doi = {10.1109/TCBB.2014.2359451},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/YuLHYYS15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/YuHYYYS14,
author = {Dong{-}Jun Yu and
Jun Hu and
Hui Yan and
Xibei Yang and
Jing{-}Yu Yang and
Hong{-}Bin Shen},
title = {Enhancing protein-vitamin binding residues prediction by multiple
heterogeneous subspace SVMs ensemble},
journal = {{BMC} Bioinform.},
volume = {15},
pages = {297},
year = {2014},
url = {https://doi.org/10.1186/1471-2105-15-297},
doi = {10.1186/1471-2105-15-297},
timestamp = {Wed, 19 Jan 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/YuHYYYS14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijon/FanS14,
author = {Yong{-}Xian Fan and
Hong{-}Bin Shen},
title = {Predicting pupylation sites in prokaryotic proteins using pseudo-amino
acid composition and extreme learning machine},
journal = {Neurocomputing},
volume = {128},
pages = {267--272},
year = {2014},
url = {https://doi.org/10.1016/j.neucom.2012.11.058},
doi = {10.1016/J.NEUCOM.2012.11.058},
timestamp = {Sat, 20 May 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijon/FanS14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijon/YangXWS14,
author = {Fan Yang and
Ying{-}Ying Xu and
Shitong Wang and
Hong{-}Bin Shen},
title = {Image-based classification of protein subcellular location patterns
in human reproductive tissue by ensemble learning global and local
features},
journal = {Neurocomputing},
volume = {131},
pages = {113--123},
year = {2014},
url = {https://doi.org/10.1016/j.neucom.2013.10.034},
doi = {10.1016/J.NEUCOM.2013.10.034},
timestamp = {Mon, 17 Jul 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijon/YangXWS14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tfs/CheungDS14,
author = {Ngaam J. Cheung and
Xueming Ding and
Hong{-}Bin Shen},
title = {OptiFel: {A} Convergent Heterogeneous Particle Swarm Optimization
Algorithm for Takagi-Sugeno Fuzzy Modeling},
journal = {{IEEE} Trans. Fuzzy Syst.},
volume = {22},
number = {4},
pages = {919--933},
year = {2014},
url = {https://doi.org/10.1109/TFUZZ.2013.2278972},
doi = {10.1109/TFUZZ.2013.2278972},
timestamp = {Tue, 12 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tfs/CheungDS14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ccpr/SunS14,
author = {Hai{-}Ping Sun and
Hong{-}Bin Shen},
editor = {Shutao Li and
Chenglin Liu and
Yaonan Wang},
title = {A Global Eigenvalue-Driven Balanced Deconvolution Approach for Network
Direct-Coupling Analysis},
booktitle = {Pattern Recognition - 6th Chinese Conference, {CCPR} 2014, Changsha,
China, November 17-19, 2014. Proceedings, Part {II}},
series = {Communications in Computer and Information Science},
volume = {484},
pages = {409--418},
publisher = {Springer},
year = {2014},
url = {https://doi.org/10.1007/978-3-662-45643-9\_43},
doi = {10.1007/978-3-662-45643-9\_43},
timestamp = {Wed, 24 May 2017 08:30:07 +0200},
biburl = {https://dblp.org/rec/conf/ccpr/SunS14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ccpr/XiaoS14,
author = {Feng Xiao and
Hong{-}Bin Shen},
editor = {Shutao Li and
Chenglin Liu and
Yaonan Wang},
title = {Sequence-Based Prediction of Protein-Protein Binding Residues in Alpha-Helical
Membrane Proteins},
booktitle = {Pattern Recognition - 6th Chinese Conference, {CCPR} 2014, Changsha,
China, November 17-19, 2014. Proceedings, Part {II}},
series = {Communications in Computer and Information Science},
volume = {484},
pages = {419--427},
publisher = {Springer},
year = {2014},
url = {https://doi.org/10.1007/978-3-662-45643-9\_44},
doi = {10.1007/978-3-662-45643-9\_44},
timestamp = {Wed, 24 May 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/ccpr/XiaoS14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ccpr/JingS14,
author = {Peng{-}Jie Jing and
Hong{-}Bin Shen},
editor = {Shutao Li and
Chenglin Liu and
Yaonan Wang},
title = {A Novel Two-Stage Multi-objective Ant Colony Optimization Approach
for Epistasis Learning},
booktitle = {Pattern Recognition - 6th Chinese Conference, {CCPR} 2014, Changsha,
China, November 17-19, 2014. Proceedings, Part {II}},
series = {Communications in Computer and Information Science},
volume = {484},
pages = {528--535},
publisher = {Springer},
year = {2014},
url = {https://doi.org/10.1007/978-3-662-45643-9\_56},
doi = {10.1007/978-3-662-45643-9\_56},
timestamp = {Wed, 24 May 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/ccpr/JingS14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/XuYZS13,
author = {Ying{-}Ying Xu and
Fan Yang and
Yang Zhang and
Hong{-}Bin Shen},
title = {An image-based multi-label human protein subcellular localization
predictor (\emph{i}Locator) reveals protein mislocalizations in cancer
tissues},
journal = {Bioinform.},
volume = {29},
number = {16},
pages = {2032--2040},
year = {2013},
url = {https://doi.org/10.1093/bioinformatics/btt320},
doi = {10.1093/BIOINFORMATICS/BTT320},
timestamp = {Tue, 04 Jul 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/XuYZS13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/YangJZS13,
author = {Jing Yang and
Richard Jang and
Yang Zhang and
Hong{-}Bin Shen},
title = {High-accuracy prediction of transmembrane inter-helix contacts and
application to {GPCR} 3D structure modeling},
journal = {Bioinform.},
volume = {29},
number = {20},
pages = {2579--2587},
year = {2013},
url = {https://doi.org/10.1093/bioinformatics/btt440},
doi = {10.1093/BIOINFORMATICS/BTT440},
timestamp = {Tue, 04 Jul 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/YangJZS13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/cmmm/ShenSTLH13,
author = {Bairong Shen and
Hong{-}Bin Shen and
Tianhai Tian and
Qiang L{\"{u}} and
Guang Hu},
title = {Translational Bioinformatics and Computational Systems Medicine},
journal = {Comput. Math. Methods Medicine},
volume = {2013},
pages = {375641:1--375641:2},
year = {2013},
url = {https://doi.org/10.1155/2013/375641},
doi = {10.1155/2013/375641},
timestamp = {Sat, 25 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/cmmm/ShenSTLH13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijon/LeiYS13,
author = {Jian{-}Bo Lei and
Jiang{-}Bo Yin and
Hong{-}Bin Shen},
title = {{GFO:} {A} data driven approach for optimizing the Gaussian function
based similarity metric in computational biology},
journal = {Neurocomputing},
volume = {99},
pages = {307--315},
year = {2013},
url = {https://doi.org/10.1016/j.neucom.2012.07.003},
doi = {10.1016/J.NEUCOM.2012.07.003},
timestamp = {Sat, 20 May 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijon/LeiYS13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijon/YuHTSYY13,
author = {Dong{-}Jun Yu and
Jun Hu and
Zhenmin Tang and
Hong{-}Bin Shen and
Jian Yang and
Jing{-}Yu Yang},
title = {Improving protein-ATP binding residues prediction by boosting SVMs
with random under-sampling},
journal = {Neurocomputing},
volume = {104},
pages = {180--190},
year = {2013},
url = {https://doi.org/10.1016/j.neucom.2012.10.012},
doi = {10.1016/J.NEUCOM.2012.10.012},
timestamp = {Wed, 19 Jan 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ijon/YuHTSYY13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/YuHHSQTY13,
author = {Dong{-}Jun Yu and
Jun Hu and
Yan Huang and
Hong{-}Bin Shen and
Yong Qi and
Zhenmin Tang and
Jing{-}Yu Yang},
title = {TargetATPsite: {A} template-free method for ATP-binding sites prediction
with residue evolution image sparse representation and classifier
ensemble},
journal = {J. Comput. Chem.},
volume = {34},
number = {11},
pages = {974--985},
year = {2013},
url = {https://doi.org/10.1002/jcc.23219},
doi = {10.1002/JCC.23219},
timestamp = {Wed, 19 Jan 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcc/YuHHSQTY13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/YuHYSTY13,
author = {Dong{-}Jun Yu and
Jun Hu and
Jing Yang and
Hong{-}Bin Shen and
Jinhui Tang and
Jing{-}Yu Yang},
title = {Designing Template-Free Predictor for Targeting Protein-Ligand Binding
Sites with Classifier Ensemble and Spatial Clustering},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {10},
number = {4},
pages = {994--1008},
year = {2013},
url = {https://doi.org/10.1109/TCBB.2013.104},
doi = {10.1109/TCBB.2013.104},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/YuHYSTY13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/ZhangYLFHS12,
author = {Ya{-}Nan Zhang and
Dong{-}Jun Yu and
Shu{-}Sen Li and
Yong{-}Xian Fan and
Yan Huang and
Hong{-}Bin Shen},
title = {Predicting protein-ATP binding sites from primary sequence through
fusing bi-profile sampling of multi-view features},
journal = {{BMC} Bioinform.},
volume = {13},
pages = {118},
year = {2012},
url = {https://doi.org/10.1186/1471-2105-13-118},
doi = {10.1186/1471-2105-13-118},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/ZhangYLFHS12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iscide/YangXS12,
author = {Fan Yang and
Ying{-}Ying Xu and
Hong{-}Bin Shen},
editor = {Jian Yang and
Fang Fang and
Changyin Sun},
title = {Automated Classification of Protein Subcellular Location Patterns
on Images of Human Reproductive Tissues},
booktitle = {Intelligent Science and Intelligent Data Engineering - Third Sino-foreign-interchange
Workshop, IScIDE 2012, Nanjing, China, October 15-17, 2012. Revised
Selected Papers},
series = {Lecture Notes in Computer Science},
volume = {7751},
pages = {254--262},
publisher = {Springer},
year = {2012},
url = {https://doi.org/10.1007/978-3-642-36669-7\_32},
doi = {10.1007/978-3-642-36669-7\_32},
timestamp = {Tue, 14 May 2019 10:00:39 +0200},
biburl = {https://dblp.org/rec/conf/iscide/YangXS12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/candc/JiaoHS11,
author = {Qing{-}Ju Jiao and
Yan Huang and
Hong{-}Bin Shen},
title = {Large-scale mining co-expressed genes in Arabidopsis anther: From
pair to group},
journal = {Comput. Biol. Chem.},
volume = {35},
number = {2},
pages = {62--68},
year = {2011},
url = {https://doi.org/10.1016/j.compbiolchem.2011.01.003},
doi = {10.1016/J.COMPBIOLCHEM.2011.01.003},
timestamp = {Fri, 13 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/candc/JiaoHS11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijon/YinLS11,
author = {Jiang{-}Bo Yin and
Tao Li and
Hong{-}Bin Shen},
title = {Gaussian kernel optimization: Complex problem and a simple solution},
journal = {Neurocomputing},
volume = {74},
number = {18},
pages = {3816--3822},
year = {2011},
url = {https://doi.org/10.1016/j.neucom.2011.07.017},
doi = {10.1016/J.NEUCOM.2011.07.017},
timestamp = {Sat, 20 May 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijon/YinLS11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jbcb/SongTBSMWAWP11,
author = {Jiangning Song and
Hao Tan and
Sarah E. Boyd and
Hong{-}Bin Shen and
Khalid Mahmood and
Geoffrey I. Webb and
Tatsuya Akutsu and
James C. Whisstock and
Robert N. Pike},
title = {Bioinformatic Approaches for Predicting substrates of Proteases},
journal = {J. Bioinform. Comput. Biol.},
volume = {9},
number = {1},
pages = {149--178},
year = {2011},
url = {https://doi.org/10.1142/S0219720011005288},
doi = {10.1142/S0219720011005288},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jbcb/SongTBSMWAWP11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/SongTSMBWAW10,
author = {Jiangning Song and
Hao Tan and
Hong{-}Bin Shen and
Khalid Mahmood and
Sarah E. Boyd and
Geoffrey I. Webb and
Tatsuya Akutsu and
James C. Whisstock},
title = {Cascleave: towards more accurate prediction of caspase substrate cleavage
sites},
journal = {Bioinform.},
volume = {26},
number = {6},
pages = {752--760},
year = {2010},
url = {https://doi.org/10.1093/bioinformatics/btq043},
doi = {10.1093/BIOINFORMATICS/BTQ043},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/SongTSMBWAW10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/imt/SongTSTGA10,
author = {Jiangning Song and
Kazuhiro Takemoto and
Hongbin Shen and
Hao Tan and
M. Michael Gromiha and
Tatsuya Akutsu},
title = {Prediction of Protein Folding Rates from Structural Topology and Complex
Network Properties},
journal = {Inf. Media Technol.},
volume = {5},
number = {3},
pages = {980--993},
year = {2010},
url = {https://doi.org/10.11185/imt.5.980},
doi = {10.11185/IMT.5.980},
timestamp = {Wed, 04 Sep 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/imt/SongTSTGA10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/ZhuYSCS10,
author = {Lin Zhu and
Jie Yang and
Jiangning Song and
Kuo{-}Chen Chou and
Hong{-}Bin Shen},
title = {Improving the accuracy of predicting disulfide connectivity by feature
selection},
journal = {J. Comput. Chem.},
volume = {31},
number = {7},
pages = {1478--1485},
year = {2010},
url = {https://doi.org/10.1002/jcc.21433},
doi = {10.1002/JCC.21433},
timestamp = {Wed, 01 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/ZhuYSCS10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ShenC06,
author = {Hong{-}Bin Shen and
Kuo{-}Chen Chou},
title = {Ensemble classifier for protein fold pattern recognition},
journal = {Bioinform.},
volume = {22},
number = {14},
pages = {1717--1722},
year = {2006},
url = {https://doi.org/10.1093/bioinformatics/btl170},
doi = {10.1093/BIOINFORMATICS/BTL170},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/ShenC06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/soco/ShenYWL06,
author = {Hong{-}Bin Shen and
Jie Yang and
Shitong Wang and
Xiaojun Liu},
title = {Attribute weighted mercer kernel based fuzzy clustering algorithm
for general non-spherical datasets},
journal = {Soft Comput.},
volume = {10},
number = {11},
pages = {1061--1073},
year = {2006},
url = {https://doi.org/10.1007/s00500-005-0043-5},
doi = {10.1007/S00500-005-0043-5},
timestamp = {Mon, 17 Jul 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/soco/ShenYWL06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/csr/LiuYSW06,
author = {Xiaojun Liu and
Jie Yang and
Hong{-}Bin Shen and
Xiangyang Wang},
editor = {Dima Grigoriev and
John Harrison and
Edward A. Hirsch},
title = {A New Scaling Kernel-Based Fuzzy System with Low Computational Complexity},
booktitle = {Computer Science - Theory and Applications, First International Symposium
on Computer Science in Russia, {CSR} 2006, St. Petersburg, Russia,
June 8-12, 2006, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {3967},
pages = {466--474},
publisher = {Springer},
year = {2006},
url = {https://doi.org/10.1007/11753728\_47},
doi = {10.1007/11753728\_47},
timestamp = {Tue, 29 Nov 2022 13:36:56 +0100},
biburl = {https://dblp.org/rec/conf/csr/LiuYSW06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/asc/WangCHD05,
author = {Shitong Wang and
Fu{-}Lai Chung and
Hong{-}Bin Shen and
Dewen Hu},
title = {Cascaded centralized {TSK} fuzzy system: universal approximator and
high interpretation},
journal = {Appl. Soft Comput.},
volume = {5},
number = {2},
pages = {131--145},
year = {2005},
url = {https://doi.org/10.1016/j.asoc.2004.03.014},
doi = {10.1016/J.ASOC.2004.03.014},
timestamp = {Fri, 14 Jul 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/asc/WangCHD05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ida/WangCS05,
author = {Shitong Wang and
Korris Fu{-}Lai Chung and
Hong{-}Bin Shen},
title = {Fuzzy taxonomy, quantitative database and mining generalized association
rules},
journal = {Intell. Data Anal.},
volume = {9},
number = {2},
pages = {207--217},
year = {2005},
url = {http://content.iospress.com/articles/intelligent-data-analysis/ida00205},
timestamp = {Fri, 14 Jul 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ida/WangCS05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ida/ShenYCDW05,
author = {Hong{-}Bin Shen and
Jie Yang and
Ningjiang Chen and
Yifei Dong and
Shitong Wang},
title = {Performing clustering analysis on collaborative models},
journal = {Intell. Data Anal.},
volume = {9},
number = {5},
pages = {419--438},
year = {2005},
url = {http://content.iospress.com/articles/intelligent-data-analysis/ida00220},
timestamp = {Mon, 17 Jul 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ida/ShenYCDW05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/soco/WangCSZ04,
author = {Shitong Wang and
Korris Fu{-}Lai Chung and
Hong{-}Bin Shen and
Ruiqiang Zhu},
title = {Note on the relationship between probabilistic and fuzzy clustering},
journal = {Soft Comput.},
volume = {8},
number = {5},
pages = {366--369},
year = {2004},
url = {https://doi.org/10.1007/s00500-003-0302-2},
doi = {10.1007/S00500-003-0302-2},
timestamp = {Fri, 14 Jul 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/soco/WangCSZ04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/soco/ChungWSZ04,
author = {Korris Fu{-}Lai Chung and
Shitong Wang and
Hong{-}Bin Shen and
Ruiqiang Zhu},
title = {Note on the relationship between probabilistic and fuzzy clustering},
journal = {Soft Comput.},
volume = {8},
number = {7},
pages = {523--526},
year = {2004},
url = {https://doi.org/10.1007/s00500-003-0309-8},
doi = {10.1007/S00500-003-0309-8},
timestamp = {Fri, 14 Jul 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/soco/ChungWSZ04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/aimsa/ShenYW04,
author = {Hong{-}Bin Shen and
Jie Yang and
Shitong Wang},
editor = {Christoph Bussler and
Dieter Fensel},
title = {Outlier Detecting in Fuzzy Switching Regression Models},
booktitle = {Artificial Intelligence: Methodology, Systems, and Applications, 11th
International Conference, {AIMSA} 2004, Varna, Bulgaria, September
2-4, 2004, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {3192},
pages = {208--215},
publisher = {Springer},
year = {2004},
url = {https://doi.org/10.1007/978-3-540-30106-6\_21},
doi = {10.1007/978-3-540-30106-6\_21},
timestamp = {Tue, 14 May 2019 10:00:55 +0200},
biburl = {https://dblp.org/rec/conf/aimsa/ShenYW04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/rsctc/ShenWY04,
author = {Hong{-}Bin Shen and
Shitong Wang and
Jie Yang},
editor = {Shusaku Tsumoto and
Roman Slowinski and
Henryk Jan Komorowski and
Jerzy W. Grzymala{-}Busse},
title = {Fuzzy Taxonomic, Quantitative Database and Mining Generalized Association
Rules},
booktitle = {Rough Sets and Current Trends in Computing, 4th International Conference,
{RSCTC} 2004, Uppsala, Sweden, June 1-5, 2004, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {3066},
pages = {610--617},
publisher = {Springer},
year = {2004},
url = {https://doi.org/10.1007/978-3-540-25929-9\_75},
doi = {10.1007/978-3-540-25929-9\_75},
timestamp = {Tue, 14 May 2019 10:00:51 +0200},
biburl = {https://dblp.org/rec/conf/rsctc/ShenWY04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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