Xiangxiang Zeng

Xiangxiang Zeng

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Xiangxiang Zeng

Xiangxiang Zeng

Publications by authors named "Xiangxiang Zeng"

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42Publications

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deepDR: A network-based deep learning approach to in silico drug repositioning.

Bioinformatics 2019 May 22. Epub 2019 May 22.

Genomic Medicine Institute, Lerner Research Institute, Cleveland Clinic, Cleveland, OH, USA.

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http://dx.doi.org/10.1093/bioinformatics/btz418DOI Listing
May 2019

Learning to Predict Drug Target Interaction from Missing Not at Random Labels.

IEEE Trans Nanobioscience 2019 Apr 9. Epub 2019 Apr 9.

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http://dx.doi.org/10.1109/TNB.2019.2909293DOI Listing
April 2019

Details in the evaluation of circular RNA detection tools: Reply to Chen and Chuang.

PLoS Comput Biol 2019 Apr 25;15(4):e1006916. Epub 2019 Apr 25.

Institute of Fundamental and Frontier Sciences, University of Electronic Science and Technology of China, Chengdu, China.

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http://dx.plos.org/10.1371/journal.pcbi.1006916
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http://dx.doi.org/10.1371/journal.pcbi.1006916DOI Listing
April 2019

Prediction of Potential Disease-Associated MicroRNAs by Using Neural Networks.

Mol Ther Nucleic Acids 2019 Apr 18;16:566-575. Epub 2019 Apr 18.

Institute of Fundamental and Frontier Sciences, University of Electronic Science and Technology of China, Chengdu 610000, China; Center for Informational Biology, University of Electronic Science and Technology of China, Chengdu 610000, China. Electronic address:

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http://dx.doi.org/10.1016/j.omtn.2019.04.010DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6510966PMC
April 2019

Deep collaborative filtering for prediction of disease genes.

IEEE/ACM Trans Comput Biol Bioinform 2019 Mar 26. Epub 2019 Mar 26.

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http://dx.doi.org/10.1109/TCBB.2019.2907536DOI Listing
March 2019

MOEA/HD: A Multiobjective Evolutionary Algorithm Based on Hierarchical Decomposition.

IEEE Trans Cybern 2019 Feb 25;49(2):517-526. Epub 2017 Dec 25.

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http://dx.doi.org/10.1109/TCYB.2017.2779450DOI Listing
February 2019

Computational methods for identifying the critical nodes in biological networks.

Brief Bioinform 2019 Feb 12. Epub 2019 Feb 12.

Department of Computer Science, Xiamen University, China.

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https://academic.oup.com/bib/advance-article/doi/10.1093/bib
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http://dx.doi.org/10.1093/bib/bbz011DOI Listing
February 2019

A component overlapping attribute clustering (COAC) algorithm for single-cell RNA sequencing data analysis and potential pathobiological implications.

PLoS Comput Biol 2019 02 19;15(2):e1006772. Epub 2019 Feb 19.

Genomic Medicine Institute, Lerner Research Institute, Cleveland Clinic, Cleveland, OH, United States of America.

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http://dx.doi.org/10.1371/journal.pcbi.1006772DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6396937PMC
February 2019

Identification and Analysis of Rice Yield-Related Candidate Genes by Walking on the Functional Network.

Front Plant Sci 2018 20;9:1685. Epub 2018 Nov 20.

School of Information Science and Engineering, Xiamen University, Xiamen, China.

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http://dx.doi.org/10.3389/fpls.2018.01685DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6262309PMC
November 2018

Sequence clustering in bioinformatics: an empirical study.

Brief Bioinform 2018 Sep 18. Epub 2018 Sep 18.

Xiamen University.

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http://dx.doi.org/10.1093/bib/bby090DOI Listing
September 2018

Sc-ncDNAPred: A Sequence-Based Predictor for Identifying Non-coding DNA in .

Front Microbiol 2018 12;9:2174. Epub 2018 Sep 12.

School of Computer Science and Technology, Tianjin University, Tianjin, China.

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http://dx.doi.org/10.3389/fmicb.2018.02174DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6144933PMC
September 2018

Prediction of potential disease-associated microRNAs using structural perturbation method.

Bioinformatics 2018 07;34(14):2425-2432

School of Computer Science and Technology, Tianjin University, Tianjin, China.

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http://dx.doi.org/10.1093/bioinformatics/bty112DOI Listing
July 2018

Prediction of Drug-Gene Interaction by Using Metapath2vec.

Front Genet 2018 31;9:248. Epub 2018 Jul 31.

Department of Computer Science, Xiamen University, Xiamen, China.

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http://dx.doi.org/10.3389/fgene.2018.00248DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6079268PMC
July 2018

RicyerDB: A Database For Collecting Rice Yield-related Genes with Biological Analysis.

Int J Biol Sci 2018 22;14(8):965-970. Epub 2018 May 22.

School of Computer Science and Technology, Tianjin University, Tianjin, 300354, China.

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http://dx.doi.org/10.7150/ijbs.23328DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6036756PMC
May 2018

Spiking Neural P Systems With Scheduled Synapses.

IEEE Trans Nanobioscience 2017 12 16;16(8):792-801. Epub 2017 Oct 16.

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http://dx.doi.org/10.1109/TNB.2017.2762580DOI Listing
December 2017

Using MOEA with Redistribution and Consensus Branches to Infer Phylogenies.

Int J Mol Sci 2017 Dec 26;19(1). Epub 2017 Dec 26.

National Institute of Diagnostics and Vaccine Development in Infectious Diseases, Xiamen University, Xiamen 361102, China.

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http://dx.doi.org/10.3390/ijms19010062DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5796012PMC
December 2017

Reconstructing evolutionary trees in parallel for massive sequences.

BMC Syst Biol 2017 12 14;11(Suppl 6):100. Epub 2017 Dec 14.

State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China.

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http://dx.doi.org/10.1186/s12918-017-0476-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5751538PMC
December 2017

Probability-based collaborative filtering model for predicting gene-disease associations.

BMC Med Genomics 2017 12 28;10(Suppl 5):76. Epub 2017 Dec 28.

School of Computer Science and Technology, Tianjin University, Tianjin, China.

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http://dx.doi.org/10.1186/s12920-017-0313-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5751590PMC
December 2017

Prediction and Validation of Disease Genes Using HeteSim Scores.

IEEE/ACM Trans Comput Biol Bioinform 2017 May-Jun;14(3):687-695. Epub 2016 Feb 12.

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http://ieeexplore.ieee.org/document/7406753/
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http://dx.doi.org/10.1109/TCBB.2016.2520947DOI Listing
November 2017

Predict the Relationship between Gene and Large Yellow Croaker's Economic Traits.

Molecules 2017 Nov 16;22(11). Epub 2017 Nov 16.

School of Information Science and Technology, Xiamen University, Xiamen 361005, China.

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http://dx.doi.org/10.3390/molecules22111978DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6150269PMC
November 2017

Meta-Path Methods for Prioritizing Candidate Disease miRNAs.

IEEE/ACM Trans Comput Biol Bioinform 2019 Jan-Feb;16(1):283-291. Epub 2017 Nov 22.

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http://dx.doi.org/10.1109/TCBB.2017.2776280DOI Listing
November 2017

A decision support model for investment on P2P lending platform.

PLoS One 2017 6;12(9):e0184242. Epub 2017 Sep 6.

School of Computer Science, Florida International University, Miami, FL, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0184242PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5587282PMC
October 2017

A comprehensive overview and evaluation of circular RNA detection tools.

PLoS Comput Biol 2017 Jun 8;13(6):e1005420. Epub 2017 Jun 8.

School of Computer Science and Technology, Tianjin University, Tianjin, China.

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http://dx.doi.org/10.1371/journal.pcbi.1005420DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5466358PMC
June 2017

Pretata: predicting TATA binding proteins with novel features and dimensionality reduction strategy.

BMC Syst Biol 2016 Dec 23;10(Suppl 4):114. Epub 2016 Dec 23.

School of Information Science and Engineering, Xiamen University, Xiamen, China.

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http://dx.doi.org/10.1186/s12918-016-0353-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5259984PMC
December 2016

Prediction and validation of association between microRNAs and diseases by multipath methods.

Biochim Biophys Acta 2016 11 18;1860(11 Pt B):2735-9. Epub 2016 Mar 18.

Key Laboratory of Image Information Processing and Intelligent Control, School of Automation, Huazhong University of Science and Technology, Wuhan 430074, China. Electronic address:

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http://dx.doi.org/10.1016/j.bbagen.2016.03.016DOI Listing
November 2016

Complex Network Clustering by a Multi-objective Evolutionary Algorithm Based on Decomposition and Membrane Structure.

Sci Rep 2016 Sep 27;6:33870. Epub 2016 Sep 27.

School of Computer Science and Technology, Anhui University, Anhui, China.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5037381PMC
http://dx.doi.org/10.1038/srep33870DOI Listing
September 2016

Similarity computation strategies in the microRNA-disease network: a survey.

Brief Funct Genomics 2016 Jan 1;15(1):55-64. Epub 2015 Jul 1.

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http://dx.doi.org/10.1093/bfgp/elv024DOI Listing
January 2016

Improving tRNAscan-SE Annotation Results via Ensemble Classifiers.

Mol Inform 2015 11 14;34(11-12):761-70. Epub 2015 Sep 14.

Software School, Xiamen University, Xiamen 361005, China.

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http://dx.doi.org/10.1002/minf.201500031DOI Listing
November 2015

Approaches for recognizing disease genes based on network.

Biomed Res Int 2014 24;2014:416323. Epub 2014 Feb 24.

School of Information Science and Technology, Xiamen University, Xiamen 361005, China.

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http://dx.doi.org/10.1155/2014/416323DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3953674PMC
January 2015

nDNA-Prot: identification of DNA-binding proteins based on unbalanced classification.

BMC Bioinformatics 2014 Sep 8;15:298. Epub 2014 Sep 8.

School of Information Science and Technology, Xiamen University, Xiamen, Fujian 361005, China.

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http://dx.doi.org/10.1186/1471-2105-15-298DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4165999PMC
September 2014

Spiking neural P systems with thresholds.

Neural Comput 2014 Jul 7;26(7):1340-61. Epub 2014 Apr 7.

Department of Computer Science, Xiamen University, Xiamen 361005, Fujian, China

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http://dx.doi.org/10.1162/NECO_a_00605DOI Listing
July 2014

On some classes of sequential spiking neural p systems.

Neural Comput 2014 May 20;26(5):974-97. Epub 2014 Feb 20.

Key Lab of Intelligent Computing and Signal Processing of Ministry of Education, School of Computer Science and Technology, Anhui University, Hefei 230039, China

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http://dx.doi.org/10.1162/NECO_a_00580DOI Listing
May 2014

Performing four basic arithmetic operations with spiking neural P systems.

IEEE Trans Nanobioscience 2012 Dec 6;11(4):366-74. Epub 2012 Aug 6.

Department of Computer Science, Xiamen Unviersity, Xiamen 361005, Fujian, China.

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http://ieeexplore.ieee.org/document/6261550/
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http://dx.doi.org/10.1109/TNB.2012.2211034DOI Listing
December 2012

Small universal spiking neural P systems working in exhaustive mode.

IEEE Trans Nanobioscience 2011 Jun 27;10(2):99-105. Epub 2011 Jun 27.

Key Laboratory of Image Processing and Intelligent Control, Department of Control Science and Engineering, Huazhong University of Science and Technology, Wuhan, Hubei, China.

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http://dx.doi.org/10.1109/TNB.2011.2160281DOI Listing
June 2011

Time-free spiking neural P systems.

Neural Comput 2011 May 7;23(5):1320-42. Epub 2011 Feb 7.

Key Laboratory of Image Processing and Intelligent Control, Department of Control Science and Engineering, Huazhong University of Science and Technology, Wuhan 430074, Hubei, China.

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http://www.mitpressjournals.org/doi/10.1162/NECO_a_00115
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http://dx.doi.org/10.1162/NECO_a_00115DOI Listing
May 2011