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ORCIDBibTeX records: Xing-Ming Zhao
@article{DBLP:journals/bib/ZhaoYZYZ23,
author = {Xingzhong Zhao and
Anyi Yang and
Zi{-}Chao Zhang and
Yucheng T. Yang and
Xing{-}Ming Zhao},
title = {Deciphering the genetic architecture of human brain structure and
function: a brief survey on recent advances of neuroimaging genomics},
journal = {Briefings Bioinform.},
volume = {24},
number = {2},
year = {2023},
url = {https://doi.org/10.1093/bib/bbad060},
doi = {10.1093/BIB/BBAD060},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/ZhaoYZYZ23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/JiaWDCCZ23,
author = {Long{-}Hao Jia and
Yingjian Wu and
Yanqi Dong and
Jingchao Chen and
Wei{-}Hua Chen and
Xing{-}Ming Zhao},
title = {A survey on computational strategies for genome-resolved gut metagenomics},
journal = {Briefings Bioinform.},
volume = {24},
number = {3},
year = {2023},
url = {https://doi.org/10.1093/bib/bbad162},
doi = {10.1093/BIB/BBAD162},
timestamp = {Thu, 22 Jun 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/JiaWDCCZ23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/PanZC23,
author = {Shaojun Pan and
Xing{-}Ming Zhao and
Lu{\'{\i}}s Pedro Coelho},
title = {SemiBin2: self-supervised contrastive learning leads to better MAGs
for short- and long-read sequencing},
journal = {Bioinform.},
volume = {39},
number = {Supplement-1},
pages = {21--29},
year = {2023},
url = {https://doi.org/10.1093/bioinformatics/btad209},
doi = {10.1093/BIOINFORMATICS/BTAD209},
timestamp = {Mon, 05 Feb 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/PanZC23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/titb/ZhangZDZ23,
author = {Zi{-}Chao Zhang and
Xingzhong Zhao and
Guiying Dong and
Xing{-}Ming Zhao},
title = {Improving Alzheimer's Disease Diagnosis With Multi-Modal {PET} Embedding
Features by a 3D Multi-Task MLP-Mixer Neural Network},
journal = {{IEEE} J. Biomed. Health Informatics},
volume = {27},
number = {8},
pages = {4040--4051},
year = {2023},
url = {https://doi.org/10.1109/JBHI.2023.3280823},
doi = {10.1109/JBHI.2023.3280823},
timestamp = {Fri, 18 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/titb/ZhangZDZ23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibm/ZhaoYZ23,
author = {Xingzhong Zhao and
Yucheng T. Yang and
Xing{-}Ming Zhao},
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 = {Prioritizing genes associated with brain disorders by leveraging enhancer-promoter
interactions in diverse neural cells and tissues},
booktitle = {{IEEE} International Conference on Bioinformatics and Biomedicine,
{BIBM} 2023, Istanbul, Turkiye, December 5-8, 2023},
pages = {4993--4995},
publisher = {{IEEE}},
year = {2023},
url = {https://doi.org/10.1109/BIBM58861.2023.10385380},
doi = {10.1109/BIBM58861.2023.10385380},
timestamp = {Thu, 14 Mar 2024 16:59:09 +0100},
biburl = {https://dblp.org/rec/conf/bibm/ZhaoYZ23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/LinLDLEWZGWWHW22,
author = {Cui{-}Xiang Lin and
Hong{-}Dong Li and
Chao Deng and
Weisheng Liu and
Shannon Erhardt and
Fang{-}Xiang Wu and
Xing{-}Ming Zhao and
Yuanfang Guan and
Jun Wang and
Daifeng Wang and
Bin Hu and
Jianxin Wang},
title = {An integrated brain-specific network identifies genes associated with
neuropathologic and clinical traits of Alzheimer's disease},
journal = {Briefings Bioinform.},
volume = {23},
number = {1},
year = {2022},
url = {https://doi.org/10.1093/bib/bbab522},
doi = {10.1093/BIB/BBAB522},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/LinLDLEWZGWWHW22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/DongZFZ22,
author = {Guiying Dong and
Zi{-}Chao Zhang and
Jianfeng Feng and
Xing{-}Ming Zhao},
title = {MorbidGCN: prediction of multimorbidity with a graph convolutional
network based on integration of population phenotypes and disease
network},
journal = {Briefings Bioinform.},
volume = {23},
number = {4},
year = {2022},
url = {https://doi.org/10.1093/bib/bbac255},
doi = {10.1093/BIB/BBAC255},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/DongZFZ22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ShanLGLJYGRZH22,
author = {Nayang Shan and
Yao Lu and
Hao Guo and
Dongyu Li and
Jitong Jiang and
Linlin Yan and
Jiudong Gao and
Yong Ren and
Xing{-}Ming Zhao and
Lin Hou},
title = {CITEdb: a manually curated database of cell-cell interactions in human},
journal = {Bioinform.},
volume = {38},
number = {22},
pages = {5144--5148},
year = {2022},
url = {https://doi.org/10.1093/bioinformatics/btac654},
doi = {10.1093/BIOINFORMATICS/BTAC654},
timestamp = {Sat, 25 Feb 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/ShanLGLJYGRZH22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/gpb/LiCGZC22,
author = {Yanze Li and
Wenming Cao and
Na L. Gao and
Xing{-}Ming Zhao and
Wei{-}Hua Chen},
title = {Consistent Alterations of Human Fecal Microbes After Transplantation
into Germ-free Mice},
journal = {Genom. Proteom. Bioinform.},
volume = {20},
number = {2},
pages = {382--393},
year = {2022},
url = {https://doi.org/10.1016/j.gpb.2020.06.024},
doi = {10.1016/J.GPB.2020.06.024},
timestamp = {Mon, 05 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/gpb/LiCGZC22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/DaiZSLLWKHZC22,
author = {Die Dai and
Jiaying Zhu and
Chuqing Sun and
Min Li and
Jinxin Liu and
Sicheng Wu and
Ning Kang and
Lijie He and
Xing{-}Ming Zhao and
Wei{-}Hua Chen},
title = {GMrepo v2: a curated human gut microbiome database with special focus
on disease markers and cross-dataset comparison},
journal = {Nucleic Acids Res.},
volume = {50},
number = {{D1}},
pages = {777--784},
year = {2022},
url = {https://doi.org/10.1093/nar/gkab1019},
doi = {10.1093/NAR/GKAB1019},
timestamp = {Fri, 08 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/DaiZSLLWKHZC22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/JinHSDZLZC22,
author = {Hanbo Jin and
Guoru Hu and
Chuqing Sun and
Yiqian Duan and
Zhenmo Zhang and
Zhi Liu and
Xing{-}Ming Zhao and
Wei{-}Hua Chen},
title = {mBodyMap: a curated database for microbes across human body and their
associations with health and diseases},
journal = {Nucleic Acids Res.},
volume = {50},
number = {{D1}},
pages = {808--816},
year = {2022},
url = {https://doi.org/10.1093/nar/gkab973},
doi = {10.1093/NAR/GKAB973},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/JinHSDZLZC22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/pami/LiZL22,
author = {Tianjiao Li and
Xing{-}Ming Zhao and
Limin Li},
title = {Co-VAE: Drug-Target Binding Affinity Prediction by Co-Regularized
Variational Autoencoders},
journal = {{IEEE} Trans. Pattern Anal. Mach. Intell.},
volume = {44},
number = {12},
pages = {8861--8873},
year = {2022},
url = {https://doi.org/10.1109/TPAMI.2021.3120428},
doi = {10.1109/TPAMI.2021.3120428},
timestamp = {Mon, 05 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/pami/LiZL22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/YangCZ21,
author = {Anyi Yang and
Jingqi Chen and
Xing{-}Ming Zhao},
title = {nMAGMA: a network-enhanced method for inferring risk genes from {GWAS}
summary statistics and its application to schizophrenia},
journal = {Briefings Bioinform.},
volume = {22},
number = {4},
year = {2021},
url = {https://doi.org/10.1093/bib/bbaa298},
doi = {10.1093/BIB/BBAA298},
timestamp = {Wed, 16 Mar 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bib/YangCZ21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ZhangZWZZ21,
author = {Jinglong Zhang and
Xu Zhang and
Ying Wang and
Feng Zeng and
Xing{-}Ming Zhao},
title = {{MAT2:} manifold alignment of single-cell transcriptomes with cell
triplets},
journal = {Bioinform.},
volume = {37},
number = {19},
pages = {3263--3269},
year = {2021},
url = {https://doi.org/10.1093/bioinformatics/btab250},
doi = {10.1093/BIOINFORMATICS/BTAB250},
timestamp = {Sat, 25 Dec 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/ZhangZWZZ21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/YangWLZL21,
author = {Hangyuan Yang and
Minghui Wang and
Xia Liu and
Xing{-}Ming Zhao and
Ao Li},
title = {PhosIDN: an integrated deep neural network for improving protein phosphorylation
site prediction by combining sequence and protein-protein interaction
information},
journal = {Bioinform.},
volume = {37},
number = {24},
pages = {4668--4676},
year = {2021},
url = {https://doi.org/10.1093/bioinformatics/btab551},
doi = {10.1093/BIOINFORMATICS/BTAB551},
timestamp = {Tue, 12 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/YangWLZL21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/SongPZJCZ21,
author = {Liting Song and
Shaojun Pan and
Zichao Zhang and
Long{-}Hao Jia and
Wei{-}Hua Chen and
Xing{-}Ming Zhao},
title = {{STAB:} a spatio-temporal cell atlas of the human brain},
journal = {Nucleic Acids Res.},
volume = {49},
number = {Database-Issue},
pages = {D1029--D1037},
year = {2021},
url = {https://doi.org/10.1093/nar/gkaa762},
doi = {10.1093/NAR/GKAA762},
timestamp = {Tue, 04 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/SongPZJCZ21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/LaiJSPZDCZ21,
author = {Senying Lai and
Long{-}Hao Jia and
Balakrishnan Subramanian and
Shaojun Pan and
Jinglong Zhang and
Yanqi Dong and
Wei{-}Hua Chen and
Xing{-}Ming Zhao},
title = {mMGE: a database for human metagenomic extrachromosomal mobile genetic
elements},
journal = {Nucleic Acids Res.},
volume = {49},
number = {Database-Issue},
pages = {D783--D791},
year = {2021},
url = {https://doi.org/10.1093/nar/gkaa869},
doi = {10.1093/NAR/GKAA869},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/LaiJSPZDCZ21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/GurumayumJHCYKG21,
author = {Sanathoi Gurumayum and
Puzi Jiang and
Xiaowen Hao and
Tulio de Lima Campos and
Neil D. Young and
Pasi K. Korhonen and
Robin B. Gasser and
Peer Bork and
Xing{-}Ming Zhao and
Lijie He and
Wei{-}Hua Chen},
title = {{OGEE} v3: Online GEne Essentiality database with increased coverage
of organisms and human cell lines},
journal = {Nucleic Acids Res.},
volume = {49},
number = {Database-Issue},
pages = {D998--D1003},
year = {2021},
url = {https://doi.org/10.1093/nar/gkaa884},
doi = {10.1093/NAR/GKAA884},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/GurumayumJHCYKG21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/ShiLZ21,
author = {Kai Shi and
Wei Lin and
Xing{-}Ming Zhao},
title = {Identifying Molecular Biomarkers for Diseases With Machine Learning
Based on Integrative Omics},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {18},
number = {6},
pages = {2514--2525},
year = {2021},
url = {https://doi.org/10.1109/TCBB.2020.2986387},
doi = {10.1109/TCBB.2020.2986387},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/ShiLZ21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/access/YangWYZL20,
author = {Hang Yang and
Minghui Wang and
Zhenhua Yu and
Xing{-}Ming Zhao and
Ao Li},
title = {GANcon: Protein Contact Map Prediction With Deep Generative Adversarial
Network},
journal = {{IEEE} Access},
volume = {8},
pages = {80899--80907},
year = {2020},
url = {https://doi.org/10.1109/ACCESS.2020.2991605},
doi = {10.1109/ACCESS.2020.2991605},
timestamp = {Thu, 21 Apr 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/access/YangWYZL20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/JinOZ0Z20,
author = {Ke Jin and
Le Ou{-}Yang and
Xing{-}Ming Zhao and
Hong Yan and
Xiao{-}Fei Zhang},
title = {scTSSR: gene expression recovery for single-cell {RNA} sequencing
using two-side sparse self-representation},
journal = {Bioinform.},
volume = {36},
number = {10},
pages = {3131--3138},
year = {2020},
url = {https://doi.org/10.1093/bioinformatics/btaa108},
doi = {10.1093/BIOINFORMATICS/BTAA108},
timestamp = {Fri, 25 Dec 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/JinOZ0Z20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ZhangZ0OZL20,
author = {Zi{-}Chao Zhang and
Xiao{-}Fei Zhang and
Min Wu and
Le Ou{-}Yang and
Xing{-}Ming Zhao and
Xiaoli Li},
title = {A graph regularized generalized matrix factorization model for predicting
links in biomedical bipartite networks},
journal = {Bioinform.},
volume = {36},
number = {11},
pages = {3474--3481},
year = {2020},
url = {https://doi.org/10.1093/bioinformatics/btaa157},
doi = {10.1093/BIOINFORMATICS/BTAA157},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/ZhangZ0OZL20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijon/LiuCZZWW20,
author = {Liangliang Liu and
Shaowu Chen and
Xiaofeng Zhu and
Xing{-}Ming Zhao and
Fang{-}Xiang Wu and
Jianxin Wang},
title = {Deep convolutional neural network for accurate segmentation and quantification
of white matter hyperintensities},
journal = {Neurocomputing},
volume = {384},
pages = {231--242},
year = {2020},
url = {https://doi.org/10.1016/j.neucom.2019.12.050},
doi = {10.1016/J.NEUCOM.2019.12.050},
timestamp = {Tue, 23 Feb 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ijon/LiuCZZWW20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/WuSLWJLYLDYLG0H20,
author = {Sicheng Wu and
Chuqing Sun and
Yanze Li and
Teng Wang and
Long{-}Hao Jia and
Senying Lai and
Yaling Yang and
Pengyu Luo and
Die Dai and
Yong{-}Qing Yang and
Qibin Luo and
Na L. Gao and
Ning Kang and
Lijie He and
Xing{-}Ming Zhao and
Wei{-}Hua Chen},
title = {GMrepo: a database of curated and consistently annotated human gut
metagenomes},
journal = {Nucleic Acids Res.},
volume = {48},
number = {Database-Issue},
pages = {D545--D553},
year = {2020},
url = {https://doi.org/10.1093/nar/gkz764},
doi = {10.1093/NAR/GKZ764},
timestamp = {Sat, 25 Dec 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/WuSLWJLYLDYLG0H20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/LuoWLZL19,
author = {Fenglin Luo and
Minghui Wang and
Yu Liu and
Xing{-}Ming Zhao and
Ao Li},
title = {DeepPhos: prediction of protein phosphorylation sites with deep learning},
journal = {Bioinform.},
volume = {35},
number = {16},
pages = {2766--2773},
year = {2019},
url = {https://doi.org/10.1093/bioinformatics/bty1051},
doi = {10.1093/BIOINFORMATICS/BTY1051},
timestamp = {Mon, 16 Aug 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/LuoWLZL19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ZhangOYZHY19,
author = {Xiao{-}Fei Zhang and
Le Ou{-}Yang and
Shuo Yang and
Xing{-}Ming Zhao and
Xiaohua Hu and
Hong Yan},
title = {EnImpute: imputing dropout events in single-cell RNA-sequencing data
via ensemble learning},
journal = {Bioinform.},
volume = {35},
number = {22},
pages = {4827--4829},
year = {2019},
url = {https://doi.org/10.1093/bioinformatics/btz435},
doi = {10.1093/BIOINFORMATICS/BTZ435},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/ZhangOYZHY19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/SayersLODFLYZFZ19,
author = {Samantha Sayers and
Li Li and
Edison Ong and
Shunzhou Deng and
Guanghua Fu and
Yu Lin and
Brian Yang and
Shelley Zhang and
Zhenzong Fa and
Bin Zhao and
Zuoshuang Xiang and
Yongqing Li and
Xing{-}Ming Zhao and
Michal Olszewski and
Luonan Chen and
Yongqun He},
title = {Victors: a web-based knowledge base of virulence factors in human
and animal pathogens},
journal = {Nucleic Acids Res.},
volume = {47},
number = {Database-Issue},
pages = {D693--D700},
year = {2019},
url = {https://doi.org/10.1093/nar/gky999},
doi = {10.1093/NAR/GKY999},
timestamp = {Wed, 03 Feb 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/SayersLODFLYZFZ19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/WangC00Z19,
author = {Yin{-}Ying Wang and
Chunfeng Cui and
Liqun Qi and
Hong Yan and
Xing{-}Ming Zhao},
title = {DrPOCS: Drug Repositioning Based on Projection Onto Convex Sets},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {16},
number = {1},
pages = {154--162},
year = {2019},
url = {https://doi.org/10.1109/TCBB.2018.2830384},
doi = {10.1109/TCBB.2018.2830384},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/WangC00Z19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/XieYZ19,
author = {Wen{-}Bin Xie and
Hong Yan and
Xing{-}Ming Zhao},
title = {EmDL: Extracting miRNA-Drug Interactions from Literature},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {16},
number = {5},
pages = {1722--1728},
year = {2019},
url = {https://doi.org/10.1109/TCBB.2017.2723394},
doi = {10.1109/TCBB.2017.2723394},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/XieYZ19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcyb/Ou-YangZZWWLY19,
author = {Le Ou{-}Yang and
Xiao{-}Fei Zhang and
Xing{-}Ming Zhao and
Debby Dan Wang and
Fu Lee Wang and
Baiying Lei and
Hong Yan},
title = {Joint Learning of Multiple Differential Networks With Latent Variables},
journal = {{IEEE} Trans. Cybern.},
volume = {49},
number = {9},
pages = {3494--3506},
year = {2019},
url = {https://doi.org/10.1109/TCYB.2018.2845838},
doi = {10.1109/TCYB.2018.2845838},
timestamp = {Sat, 30 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcyb/Ou-YangZZWWLY19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/GaoZZHLZBLC18,
author = {Na L. Gao and
Chengwei Zhang and
Zhanbing Zhang and
Songnian Hu and
Martin J. Lercher and
Xing{-}Ming Zhao and
Peer Bork and
Zhi Liu and
Wei{-}Hua Chen},
title = {{MVP:} a microbe-phage interaction database},
journal = {Nucleic Acids Res.},
volume = {46},
number = {Database-Issue},
pages = {D700--D707},
year = {2018},
url = {https://doi.org/10.1093/nar/gkx1124},
doi = {10.1093/NAR/GKX1124},
timestamp = {Mon, 26 Jun 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/GaoZZHLZBLC18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/isbra/HuangZ18,
author = {Suyun Huang and
Xing{-}Ming Zhao},
editor = {Fa Zhang and
Zhipeng Cai and
Pavel Skums and
Shihua Zhang},
title = {Prediction of Drug Response with a Topology Based Dual-Layer Network
Model},
booktitle = {Bioinformatics Research and Applications - 14th International Symposium,
{ISBRA} 2018, Beijing, China, June 8-11, 2018, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {10847},
pages = {3--12},
publisher = {Springer},
year = {2018},
url = {https://doi.org/10.1007/978-3-319-94968-0\_1},
doi = {10.1007/978-3-319-94968-0\_1},
timestamp = {Thu, 20 Aug 2020 15:55:45 +0200},
biburl = {https://dblp.org/rec/conf/isbra/HuangZ18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/QinLZ17,
author = {Gui{-}Min Qin and
Rui{-}Yi Li and
Xing{-}Ming Zhao},
title = {PhosD: inferring kinase-substrate interactions based on protein domains},
journal = {Bioinform.},
volume = {33},
number = {8},
pages = {1197--1204},
year = {2017},
url = {https://doi.org/10.1093/bioinformatics/btw792},
doi = {10.1093/BIOINFORMATICS/BTW792},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/QinLZ17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/ChenLCZB17,
author = {Wei{-}Hua Chen and
Guanting Lu and
Xiao Chen and
Xing{-}Ming Zhao and
Peer Bork},
title = {{OGEE} v2: an update of the online gene essentiality database with
special focus on differentially essential genes in human cancer cell
lines},
journal = {Nucleic Acids Res.},
volume = {45},
number = {Database-Issue},
pages = {D940--D944},
year = {2017},
url = {https://doi.org/10.1093/nar/gkw1013},
doi = {10.1093/NAR/GKW1013},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/ChenLCZB17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/ZhuYCWZZ17,
author = {Guanghui Zhu and
Hui Yang and
Xiao Chen and
Jun Wu and
Yong Zhang and
Xing{-}Ming Zhao},
title = {{CSTEA:} a webserver for the Cell State Transition Expression Atlas},
journal = {Nucleic Acids Res.},
volume = {45},
number = {Webserver-Issue},
pages = {W103--W108},
year = {2017},
url = {https://doi.org/10.1093/nar/gkx402},
doi = {10.1093/NAR/GKX402},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/ZhuYCWZZ17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/HeZWZH17,
author = {Feng He and
Guanghui Zhu and
Yin{-}Ying Wang and
Xing{-}Ming Zhao and
De{-}Shuang Huang},
title = {{PCID:} {A} Novel Approach for Predicting Disease Comorbidity by Integrating
Multi-Scale Data},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {14},
number = {3},
pages = {678--686},
year = {2017},
url = {https://doi.org/10.1109/TCBB.2016.2550443},
doi = {10.1109/TCBB.2016.2550443},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/HeZWZH17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/case/ZhuJZ17,
author = {Guanghui Zhu and
Rui Jiang and
Xing{-}Ming Zhao},
title = {{PPIM:} {A} protein-protein interaction database for Maize},
booktitle = {13th {IEEE} Conference on Automation Science and Engineering, {CASE}
2017, Xi'an, China, August 20-23, 2017},
pages = {97},
publisher = {{IEEE}},
year = {2017},
url = {https://doi.org/10.1109/COASE.2017.8256085},
doi = {10.1109/COASE.2017.8256085},
timestamp = {Wed, 16 Oct 2019 14:14:53 +0200},
biburl = {https://dblp.org/rec/conf/case/ZhuJZ17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/case/SunLZJ17,
author = {Tianyi Sun and
Zhuo Liu and
Xing{-}Ming Zhao and
Rui Jiang},
title = {Exploring functional variant using a deep learning framework},
booktitle = {13th {IEEE} Conference on Automation Science and Engineering, {CASE}
2017, Xi'an, China, August 20-23, 2017},
pages = {98--99},
publisher = {{IEEE}},
year = {2017},
url = {https://doi.org/10.1109/COASE.2017.8256086},
doi = {10.1109/COASE.2017.8256086},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/case/SunLZJ17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/chinaf/GuoZDZH16,
author = {Wei{-}Li Guo and
Lin Zhu and
Suping Deng and
Xing{-}Ming Zhao and
Deshuang Huang},
title = {Understanding tissue-specificity with human tissue-specific regulatory
networks},
journal = {Sci. China Inf. Sci.},
volume = {59},
number = {7},
pages = {070105:1--070105:10},
year = {2016},
url = {https://doi.org/10.1007/s11432-016-5582-0},
doi = {10.1007/S11432-016-5582-0},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/chinaf/GuoZDZH16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijon/LiZZ16,
author = {Ao Li and
Xing{-}Ming Zhao and
Shuigeng Zhou},
title = {Data mining in systems biology},
journal = {Neurocomputing},
volume = {206},
pages = {1--2},
year = {2016},
url = {https://doi.org/10.1016/j.neucom.2016.05.055},
doi = {10.1016/J.NEUCOM.2016.05.055},
timestamp = {Tue, 05 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijon/LiZZ16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijon/QinHZ16,
author = {Gui{-}Min Qin and
Yi{-}Bo Hou and
Xing{-}Ming Zhao},
title = {A systematic exploration of the associations between amino acid variants
and post-translational modifications},
journal = {Neurocomputing},
volume = {206},
pages = {13--18},
year = {2016},
url = {https://doi.org/10.1016/j.neucom.2015.11.106},
doi = {10.1016/J.NEUCOM.2015.11.106},
timestamp = {Sat, 20 May 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijon/QinHZ16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/quanbio/ZhuZW16,
author = {Guanghui Zhu and
Xing{-}Ming Zhao and
Jun Wu},
title = {A survey on biomarker identification based on molecular networks},
journal = {Quant. Biol.},
volume = {4},
number = {4},
pages = {310--319},
year = {2016},
url = {https://doi.org/10.1007/s40484-016-0084-z},
doi = {10.1007/S40484-016-0084-Z},
timestamp = {Sun, 03 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/quanbio/ZhuZW16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/Zhao16,
author = {Xing{-}Ming Zhao},
title = {Data Mining in Systems Biology},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {13},
number = {6},
pages = {1003},
year = {2016},
url = {https://doi.org/10.1109/TCBB.2016.2617698},
doi = {10.1109/TCBB.2016.2617698},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/Zhao16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/QinLZ16,
author = {Gui{-}Min Qin and
Rui{-}Yi Li and
Xing{-}Ming Zhao},
title = {Identifying Disease Associated miRNAs Based on Protein Domains},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {13},
number = {6},
pages = {1027--1035},
year = {2016},
url = {https://doi.org/10.1109/TCBB.2016.2515608},
doi = {10.1109/TCBB.2016.2515608},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/QinLZ16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibm/XiaoZ16,
author = {Peipei Xiao and
Xing{-}Ming Zhao},
editor = {Tianhai Tian and
Qinghua Jiang and
Yunlong Liu and
Kevin Burrage and
Jiangning Song and
Yadong Wang and
Xiaohua Hu and
Shinichi Morishita and
Qian Zhu and
Guohua Wang},
title = {The exploration of functional divergence between human and macaque
brains based on gene networks},
booktitle = {{IEEE} International Conference on Bioinformatics and Biomedicine,
{BIBM} 2016, Shenzhen, China, December 15-18, 2016},
pages = {1879--1884},
publisher = {{IEEE} Computer Society},
year = {2016},
url = {https://doi.org/10.1109/BIBM.2016.7822805},
doi = {10.1109/BIBM.2016.7822805},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/bibm/XiaoZ16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ijcnn/HanZ16,
author = {Yang Han and
Xing{-}Ming Zhao},
title = {A hybrid sequential feature selection approach for the diagnosis of
Alzheimer's Disease},
booktitle = {2016 International Joint Conference on Neural Networks, {IJCNN} 2016,
Vancouver, BC, Canada, July 24-29, 2016},
pages = {1216--1220},
publisher = {{IEEE}},
year = {2016},
url = {https://doi.org/10.1109/IJCNN.2016.7727336},
doi = {10.1109/IJCNN.2016.7727336},
timestamp = {Wed, 16 Oct 2019 14:14:55 +0200},
biburl = {https://dblp.org/rec/conf/ijcnn/HanZ16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/WangZZ15,
author = {Hong{-}Qiang Wang and
Chun{-}Hou Zheng and
Xing{-}Ming Zhao},
title = {\emph{j}NMFMA: a joint non-negative matrix factorization meta-analysis
of transcriptomics data},
journal = {Bioinform.},
volume = {31},
number = {4},
pages = {572--580},
year = {2015},
url = {https://doi.org/10.1093/bioinformatics/btu679},
doi = {10.1093/BIOINFORMATICS/BTU679},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/WangZZ15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ZhaoLZHDRHJHC15,
author = {Xing{-}Ming Zhao and
Keqin Liu and
Guanghui Zhu and
Feng He and
B{\'{e}}atrice Duval and
Jean{-}Michel Richer and
De{-}Shuang Huang and
Changjun Jiang and
Jin{-}Kao Hao and
Luonan Chen},
title = {Identifying cancer-related microRNAs based on gene expression data},
journal = {Bioinform.},
volume = {31},
number = {8},
pages = {1226--1234},
year = {2015},
url = {https://doi.org/10.1093/bioinformatics/btu811},
doi = {10.1093/BIOINFORMATICS/BTU811},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/ZhaoLZHDRHJHC15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jbcb/Zhao15,
author = {Xing{-}Ming Zhao},
title = {Editorial - Data mining in bioinformatics},
journal = {J. Bioinform. Comput. Biol.},
volume = {13},
number = {6},
pages = {1502004:1--1502004:2},
year = {2015},
url = {https://doi.org/10.1142/S0219720015020047},
doi = {10.1142/S0219720015020047},
timestamp = {Wed, 24 Mar 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jbcb/Zhao15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/WangZTAWS14,
author = {Mingjun Wang and
Xing{-}Ming Zhao and
Hao Tan and
Tatsuya Akutsu and
James C. Whisstock and
Jiangning Song},
title = {Cascleave 2.0, a new approach for predicting caspase and granzyme
cleavage targets},
journal = {Bioinform.},
volume = {30},
number = {1},
pages = {71--80},
year = {2014},
url = {https://doi.org/10.1093/bioinformatics/btt603},
doi = {10.1093/BIOINFORMATICS/BTT603},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/WangZTAWS14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijon/ZhaoNH14,
author = {Xing{-}Ming Zhao and
Alioune Ngom and
Jin{-}Kao Hao},
title = {Pattern recognition in bioinformatics},
journal = {Neurocomputing},
volume = {145},
pages = {1--2},
year = {2014},
url = {https://doi.org/10.1016/j.neucom.2014.06.035},
doi = {10.1016/J.NEUCOM.2014.06.035},
timestamp = {Sat, 20 May 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijon/ZhaoNH14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/ChenZNB14,
author = {Wei{-}Hua Chen and
Xing{-}Ming Zhao and
Vera van Noort and
Peer Bork},
title = {Comments on "Human Dominant Disease Genes Are Enriched in Paralogs
Originating from Whole Genome Duplication"},
journal = {PLoS Comput. Biol.},
volume = {10},
number = {7},
year = {2014},
url = {https://doi.org/10.1371/journal.pcbi.1003758},
doi = {10.1371/JOURNAL.PCBI.1003758},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/ChenZNB14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biodb/LiuZTCZ13,
author = {Xiaoping Liu and
Xiaodong Zhang and
Weihua Tang and
Luonan Chen and
Xing{-}Ming Zhao},
title = {\emph{eFG}: an electronic resource for \emph{Fusarium graminearum}},
journal = {Database J. Biol. Databases Curation},
volume = {2013},
year = {2013},
url = {https://doi.org/10.1093/database/bat042},
doi = {10.1093/DATABASE/BAT042},
timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/biodb/LiuZTCZ13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ZhangLLDRZHC13,
author = {Xiujun Zhang and
Keqin Liu and
Zhi{-}Ping Liu and
B{\'{e}}atrice Duval and
Jean{-}Michel Richer and
Xing{-}Ming Zhao and
Jin{-}Kao Hao and
Luonan Chen},
title = {{NARROMI:} a noise and redundancy reduction technique improves accuracy
of gene regulatory network inference},
journal = {Bioinform.},
volume = {29},
number = {1},
pages = {106--113},
year = {2013},
url = {https://doi.org/10.1093/bioinformatics/bts619},
doi = {10.1093/BIOINFORMATICS/BTS619},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/ZhangLLDRZHC13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/ChenZNB13,
author = {Wei{-}Hua Chen and
Xing{-}Ming Zhao and
Vera van Noort and
Peer Bork},
title = {Human Monogenic Disease Genes Have Frequently Functionally Redundant
Paralogs},
journal = {PLoS Comput. Biol.},
volume = {9},
number = {5},
year = {2013},
url = {https://doi.org/10.1371/journal.pcbi.1003073},
doi = {10.1371/JOURNAL.PCBI.1003073},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/ChenZNB13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/prib/DaiWZ13,
author = {Yan{-}Fen Dai and
Yin{-}Ying Wang and
Xing{-}Ming Zhao},
editor = {Alioune Ngom and
Enrico Formenti and
Jin{-}Kao Hao and
Xing{-}Ming Zhao and
Twan van Laarhoven},
title = {Predicting Therapeutic Targets with Integration of Heterogeneous Data
Sources},
booktitle = {Pattern Recognition in Bioinformatics - 8th {IAPR} International Conference,
{PRIB} 2013, Nice, France, June 17-20, 2013. Proceedings},
series = {Lecture Notes in Computer Science},
volume = {7986},
pages = {149--158},
publisher = {Springer},
year = {2013},
url = {https://doi.org/10.1007/978-3-642-39159-0\_14},
doi = {10.1007/978-3-642-39159-0\_14},
timestamp = {Tue, 14 May 2019 10:00:45 +0200},
biburl = {https://dblp.org/rec/conf/prib/DaiWZ13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@proceedings{DBLP:conf/prib/2013,
editor = {Alioune Ngom and
Enrico Formenti and
Jin{-}Kao Hao and
Xing{-}Ming Zhao and
Twan van Laarhoven},
title = {Pattern Recognition in Bioinformatics - 8th {IAPR} International Conference,
{PRIB} 2013, Nice, France, June 17-20, 2013. Proceedings},
series = {Lecture Notes in Computer Science},
volume = {7986},
publisher = {Springer},
year = {2013},
url = {https://doi.org/10.1007/978-3-642-39159-0},
doi = {10.1007/978-3-642-39159-0},
isbn = {978-3-642-39158-3},
timestamp = {Tue, 14 May 2019 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/prib/2013.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ZhangZHLCLHLC12,
author = {Xiujun Zhang and
Xing{-}Ming Zhao and
Kun He and
Le Lu and
Yongwei Cao and
Jingdong Liu and
Jin{-}Kao Hao and
Zhi{-}Ping Liu and
Luonan Chen},
title = {Inferring gene regulatory networks from gene expression data by path
consistency algorithm based on conditional mutual information},
journal = {Bioinform.},
volume = {28},
number = {1},
pages = {98--104},
year = {2012},
url = {https://doi.org/10.1093/bioinformatics/btr626},
doi = {10.1093/BIOINFORMATICS/BTR626},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/ZhangZHLCLHLC12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/LiuLHCZ12,
author = {Keqin Liu and
Zhi{-}Ping Liu and
Jin{-}Kao Hao and
Luonan Chen and
Xing{-}Ming Zhao},
title = {Identifying dysregulated pathways in cancers from pathway interaction
networks},
journal = {{BMC} Bioinform.},
volume = {13},
pages = {126},
year = {2012},
url = {https://doi.org/10.1186/1471-2105-13-126},
doi = {10.1186/1471-2105-13-126},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/LiuLHCZ12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/WangXSZ12,
author = {Yin{-}Ying Wang and
Ke{-}Jia Xu and
Jiangning Song and
Xing{-}Ming Zhao},
title = {Exploring drug combinations in genetic interaction network},
journal = {{BMC} Bioinform.},
volume = {13},
number = {{S-7}},
pages = {S7},
year = {2012},
url = {https://doi.org/10.1186/1471-2105-13-S7-S7},
doi = {10.1186/1471-2105-13-S7-S7},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/WangXSZ12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/XuSZ12,
author = {Ke{-}Jia Xu and
Jiangning Song and
Xing{-}Ming Zhao},
title = {The drug cocktail network},
journal = {{BMC} Syst. Biol.},
volume = {6},
number = {{S-1}},
pages = {S5},
year = {2012},
url = {https://doi.org/10.1186/1752-0509-6-S1-S5},
doi = {10.1186/1752-0509-6-S1-S5},
timestamp = {Tue, 05 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcsb/XuSZ12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jamia/LiuLZC12,
author = {Xiaoping Liu and
Zhi{-}Ping Liu and
Xing{-}Ming Zhao and
Luonan Chen},
title = {Identifying disease genes and module biomarkers by differential interactions},
journal = {J. Am. Medical Informatics Assoc.},
volume = {19},
number = {2},
pages = {241--248},
year = {2012},
url = {https://doi.org/10.1136/amiajnl-2011-000658},
doi = {10.1136/AMIAJNL-2011-000658},
timestamp = {Mon, 11 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jamia/LiuLZC12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibm/WangZAZ12,
author = {Haiying Wang and
Huiru Zheng and
Francisco Azuaje and
Xing{-}Ming Zhao},
title = {Drug-target network in myocardial infarction: {A} structural analysis},
booktitle = {2012 {IEEE} International Conference on Bioinformatics and Biomedicine,
{BIBM} 2012, Philadelphia, PA, USA, October 4-7, 2012},
pages = {1--4},
publisher = {{IEEE} Computer Society},
year = {2012},
url = {https://doi.org/10.1109/BIBM.2012.6392702},
doi = {10.1109/BIBM.2012.6392702},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/bibm/WangZAZ12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/isb/HuZTZC12,
author = {Fu{-}Yan Hu and
Xing{-}Ming Zhao and
Nelson L. S. Tang and
Yan Zhang and
Luonan Chen},
title = {Comparative analysis of protein-coding genes and long non-coding RNAs
of prostate cancer between Caucasian and Chinese populations},
booktitle = {6th {IEEE} International Conference on Systems Biology, {ISB} 2012,
Xian, China, August 18-20, 2012},
pages = {291--296},
publisher = {{IEEE}},
year = {2012},
url = {https://doi.org/10.1109/ISB.2012.6314152},
doi = {10.1109/ISB.2012.6314152},
timestamp = {Sun, 25 Oct 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/isb/HuZTZC12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/ZhaoIZKNB11,
author = {Xing{-}Ming Zhao and
Murat Iskar and
Georg Zeller and
Michael Kuhn and
Vera van Noort and
Peer Bork},
title = {Prediction of Drug Combinations by Integrating Molecular and Pharmacological
Data},
journal = {PLoS Comput. Biol.},
volume = {7},
number = {12},
year = {2011},
url = {https://doi.org/10.1371/journal.pcbi.1002323},
doi = {10.1371/JOURNAL.PCBI.1002323},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/ZhaoIZKNB11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/XiaZSH10,
author = {Junfeng Xia and
Xing{-}Ming Zhao and
Jiangning Song and
De{-}Shuang Huang},
title = {{APIS:} accurate prediction of hot spots in protein interfaces by
combining protrusion index with solvent accessibility},
journal = {{BMC} Bioinform.},
volume = {11},
pages = {174},
year = {2010},
url = {https://doi.org/10.1186/1471-2105-11-174},
doi = {10.1186/1471-2105-11-174},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/XiaZSH10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/SunZTC10,
author = {Chenglei Sun and
Xing{-}Ming Zhao and
Weihua Tang and
Luonan Chen},
title = {FGsub: Fusarium graminearum protein subcellular localizations predicted
from primary structures},
journal = {{BMC} Syst. Biol.},
volume = {4},
number = {{S-2}},
pages = {S12},
year = {2010},
url = {https://doi.org/10.1186/1752-0509-4-S2-S12},
doi = {10.1186/1752-0509-4-S2-S12},
timestamp = {Tue, 05 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcsb/SunZTC10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WuZC10,
author = {Zikai Wu and
Xing{-}Ming Zhao and
Luonan Chen},
title = {A systems biology approach to identify effective cocktail drugs},
journal = {{BMC} Syst. Biol.},
volume = {4},
number = {{S-2}},
pages = {S7},
year = {2010},
url = {https://doi.org/10.1186/1752-0509-4-S2-S7},
doi = {10.1186/1752-0509-4-S2-S7},
timestamp = {Tue, 05 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcsb/WuZC10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijprai/ZhaoCH10,
author = {Xing{-}Ming Zhao and
Yiu{-}ming Cheung and
De{-}Shuang Huang},
title = {Analysis of Gene Expression Data Using Rpem Algorithm in Normal Mixture
Model with Dynamic Adjustment of Learning Rate},
journal = {Int. J. Pattern Recognit. Artif. Intell.},
volume = {24},
number = {4},
pages = {651--666},
year = {2010},
url = {https://doi.org/10.1142/S0218001410008056},
doi = {10.1142/S0218001410008056},
timestamp = {Mon, 11 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijprai/ZhaoCH10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jbcb/ZhaoWCA09,
author = {Xing{-}Ming Zhao and
Rui{-}Sheng Wang and
Luonan Chen and
Kazuyuki Aihara},
title = {Automatic Modeling of Signaling Pathways by Network Flow Model},
journal = {J. Bioinform. Comput. Biol.},
volume = {7},
number = {2},
pages = {309--322},
year = {2009},
url = {https://doi.org/10.1142/S0219720009004138},
doi = {10.1142/S0219720009004138},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jbcb/ZhaoWCA09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bmei/ZhaoC09,
author = {Xing{-}Ming Zhao and
Luonan Chen},
title = {A New Balanced Ensemble Classifier for Predicting Fungi Protein Subcellular
Localization Based on Protein Primary Structures},
booktitle = {Proceedings of the 2nd International Conference on BioMedical Engineering
and Informatics, {BMEI} 2009, October 17-19, 2009, Tianjin, China},
pages = {1--5},
publisher = {{IEEE}},
year = {2009},
url = {https://doi.org/10.1109/BMEI.2009.5305401},
doi = {10.1109/BMEI.2009.5305401},
timestamp = {Wed, 16 Oct 2019 14:14:50 +0200},
biburl = {https://dblp.org/rec/conf/bmei/ZhaoC09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/complex/WangZL09,
author = {Ruiqi Wang and
Xing{-}Ming Zhao and
Zengrong Liu},
editor = {Jie Zhou},
title = {Modeling and Dynamical Analysis of Molecular Networks},
booktitle = {Complex Sciences, First International Conference, Complex 2009, Shanghai,
China, February 23-25, 2009. Revised Papers, Part 2},
series = {Lecture Notes of the Institute for Computer Sciences, Social Informatics
and Telecommunications Engineering},
volume = {5},
pages = {2139--2148},
publisher = {Springer},
year = {2009},
url = {https://doi.org/10.1007/978-3-642-02469-6\_90},
doi = {10.1007/978-3-642-02469-6\_90},
timestamp = {Wed, 24 May 2017 08:27:17 +0200},
biburl = {https://dblp.org/rec/conf/complex/WangZL09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/ZhaoWCA08,
author = {Xing{-}Ming Zhao and
Yong Wang and
Luonan Chen and
Kazuyuki Aihara},
title = {Gene function prediction using labeled and unlabeled data},
journal = {{BMC} Bioinform.},
volume = {9},
year = {2008},
url = {https://doi.org/10.1186/1471-2105-9-57},
doi = {10.1186/1471-2105-9-57},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/ZhaoWCA08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/gpb/ZhengHKZ08,
author = {Chun{-}Hou Zheng and
De{-}Shuang Huang and
Xiangzhen Kong and
Xing{-}Ming Zhao},
title = {Gene Expression Data Classification Using Consensus Independent Component
Analysis},
journal = {Genom. Proteom. Bioinform.},
volume = {6},
number = {2},
pages = {74--82},
year = {2008},
url = {https://doi.org/10.1016/S1672-0229(08)60022-4},
doi = {10.1016/S1672-0229(08)60022-4},
timestamp = {Tue, 06 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/gpb/ZhengHKZ08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijbra/ChenHZL08,
author = {Peng Chen and
De{-}Shuang Huang and
Xing{-}Ming Zhao and
Xueling Li},
title = {Predicting contact map using Radial Basis Function Neural Network
with Conformational Energy Function},
journal = {Int. J. Bioinform. Res. Appl.},
volume = {4},
number = {2},
pages = {123--136},
year = {2008},
url = {https://doi.org/10.1504/IJBRA.2008.018340},
doi = {10.1504/IJBRA.2008.018340},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijbra/ChenHZL08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijbra/ZhaoCA08,
author = {Xing{-}Ming Zhao and
Luonan Chen and
Kazuyuki Aihara},
title = {Protein function prediction with the shortest path in functional linkage
graph and boosting},
journal = {Int. J. Bioinform. Res. Appl.},
volume = {4},
number = {4},
pages = {375--384},
year = {2008},
url = {https://doi.org/10.1504/IJBRA.2008.021175},
doi = {10.1504/IJBRA.2008.021175},
timestamp = {Fri, 11 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijbra/ZhaoCA08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/apbc/ZhaoWCA08,
author = {Xing{-}Ming Zhao and
Rui{-}Sheng Wang and
Luonan Chen and
Kazuyuki Aihara},
editor = {Alvis Brazma and
Satoru Miyano and
Tatsuya Akutsu},
title = {Automatic Modeling of Signal Pathways from Protein-Protein Interaction
Networks},
booktitle = {Proceedings of the 6th Asia-Pacific Bioinformatics Conference, {APBC}
2008, 14-17 January 2008, Kyoto, Japan},
series = {Advances in Bioinformatics and Computational Biology},
volume = {6},
pages = {287--296},
publisher = {Imperial College Press},
year = {2008},
url = {http://www.comp.nus.edu.sg/\%7Ewongls/psZ/apbc2008/apbc101a.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/apbc/ZhaoWCA08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/prib/ZhaoC08,
author = {Xing{-}Ming Zhao and
Luonan Chen},
editor = {Madhu Chetty and
Alioune Ngom and
Shandar Ahmad},
title = {Domain-Domain Interaction Identification with a Feature Selection
Approach},
booktitle = {Pattern Recognition in Bioinformatics, Third {IAPR} International
Conference, {PRIB} 2008, Melbourne, Australia, October 15-17, 2008.
Proceedings},
series = {Lecture Notes in Computer Science},
volume = {5265},
pages = {178--186},
publisher = {Springer},
year = {2008},
url = {https://doi.org/10.1007/978-3-540-88436-1\_16},
doi = {10.1007/978-3-540-88436-1\_16},
timestamp = {Tue, 14 May 2019 10:00:45 +0200},
biburl = {https://dblp.org/rec/conf/prib/ZhaoC08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijprai/ZhaoDWZL06,
author = {Xing{-}Ming Zhao and
Ji{-}Xiang Du and
Hong{-}Qiang Wang and
Yunping Zhu and
Yixue Li},
title = {A new technique for selecting features from protein sequences},
journal = {Int. J. Pattern Recognit. Artif. Intell.},
volume = {20},
number = {2},
pages = {271--283},
year = {2006},
url = {https://doi.org/10.1142/S021800140600465X},
doi = {10.1142/S021800140600465X},
timestamp = {Mon, 11 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijprai/ZhaoDWZL06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/pr/HuangZHC06,
author = {De{-}Shuang Huang and
Xing{-}Ming Zhao and
Guang{-}Bin Huang and
Yiu{-}ming Cheung},
title = {Classifying protein sequences using hydropathy blocks},
journal = {Pattern Recognit.},
volume = {39},
number = {12},
pages = {2293--2300},
year = {2006},
url = {https://doi.org/10.1016/j.patcog.2005.11.012},
doi = {10.1016/J.PATCOG.2005.11.012},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/pr/HuangZHC06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/icic/ZhaoHZC06,
author = {Xing{-}Ming Zhao and
De{-}Shuang Huang and
Shiwu Zhang and
Yiu{-}ming Cheung},
editor = {De{-}Shuang Huang and
Kang Li and
George W. Irwin},
title = {Classifying G-Protein Coupled Receptors with Hydropathy Blocks and
Support Vector Machines},
booktitle = {Computational Intelligence and Bioinformatics, International Conference
on Intelligent Computing, {ICIC} 2006, Kunming, China, August 16-19,
2006. Proceedings, Part {III}},
series = {Lecture Notes in Computer Science},
volume = {4115},
pages = {593--602},
publisher = {Springer},
year = {2006},
url = {https://doi.org/10.1007/11816102\_63},
doi = {10.1007/11816102\_63},
timestamp = {Tue, 14 May 2019 10:00:53 +0200},
biburl = {https://dblp.org/rec/conf/icic/ZhaoHZC06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nn/ZhaoCH05,
author = {Xing{-}Ming Zhao and
Yiu{-}ming Cheung and
De{-}Shuang Huang},
title = {A novel approach to extracting features from motif content and protein
composition for protein sequence classification},
journal = {Neural Networks},
volume = {18},
number = {8},
pages = {1019--1028},
year = {2005},
url = {https://doi.org/10.1016/j.neunet.2005.07.002},
doi = {10.1016/J.NEUNET.2005.07.002},
timestamp = {Wed, 14 Nov 2018 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nn/ZhaoCH05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ideal/ZhaoHCWH04,
author = {Xing{-}Ming Zhao and
De{-}Shuang Huang and
Yiu{-}ming Cheung and
Hong{-}Qiang Wang and
Xin Huang},
editor = {Zheng Rong Yang and
Richard M. Everson and
Hujun Yin},
title = {A Novel Hybrid {GA/SVM} System for Protein Sequences Classification},
booktitle = {Intelligent Data Engineering and Automated Learning - {IDEAL} 2004,
5th International Conference, Exeter, UK, August 25-27, 2004, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {3177},
pages = {11--16},
publisher = {Springer},
year = {2004},
url = {https://doi.org/10.1007/978-3-540-28651-6\_2},
doi = {10.1007/978-3-540-28651-6\_2},
timestamp = {Tue, 14 May 2019 10:00:45 +0200},
biburl = {https://dblp.org/rec/conf/ideal/ZhaoHCWH04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/isnn/WangHZH04,
author = {Hong{-}Qiang Wang and
De{-}Shuang Huang and
Xing{-}Ming Zhao and
Xin Huang},
editor = {Fuliang Yin and
Jun Wang and
Chengan Guo},
title = {A Novel Clustering Analysis Based on {PCA} and SOMs for Gene Expression
Patterns},
booktitle = {Advances in Neural Networks - {ISNN} 2004, International Symposium
on Neural Networks, Dalian, China, August 19-21, 2004, Proceedings,
Part {II}},
series = {Lecture Notes in Computer Science},
volume = {3174},
pages = {476--481},
publisher = {Springer},
year = {2004},
url = {https://doi.org/10.1007/978-3-540-28648-6\_76},
doi = {10.1007/978-3-540-28648-6\_76},
timestamp = {Thu, 09 Jan 2020 18:22:01 +0100},
biburl = {https://dblp.org/rec/conf/isnn/WangHZH04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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