Ivan Gutman , Yusen Zhang, Matthias Dehmer, Aleksandar Ilic, Altenburg, Wiener, and Hosoya Polynomials,
book： I. Gutman, B. Furtula (Eds.), Distance in Molecular Graphs Theory, Univ. Kragujevac, Kragujevac, 2012, pp. 49–70.
2022及2023年
1)[86]Jian Liu, Fubin Ma, Yongdi Zhu, Naiqian Zhang, Lingming Kong, Jia Mi, Haiyan Cong, Rui Gao, Mingyi Wang, Yusen Zhang, MaxCLK: discovery of cancer driver genes via maximal clique and information entropy of modules,
Bioinformatics, Volume 39, Issue 12, December 2023, btad737,
2)[85]Shengli Zhang, ..., Yusen Zhang, Fer-COCL: A Novel Method Based on Multiple Deep Learning Algorithms for Identifying Fertility-Related Proteins,
MATCH Communications in Mathematical and in Computer Chemistry，
Volume 90 Issue 3 Year 2023 Pages 537-559
3)[84]Na Yu ...Yusen Zhang Rui Gao, A Tensor Method Based on Enhanced Tensor Nuclear Norm and Hypergraph Laplacian Regularization for Pan-Cancer Omics Data Analysis,IEEE Journal of Biomedical and Health Informatics,December 2022
4)[83]Chenye Wang... Yusen Zhang,Naiqian Zhang, DriverRWH: discovering cancer driver genes by random walk on a gene mutation hypergraph
BMC Bioinformatics,July 2022
5)[82]Hengchun Cao, Da Xu, Tiantian Zhang, Qiufang Ren, Li Xiang, Chunhui Ning, Yusen Zhang, Rui Gao, Comprehensive and functional analyses reveal the genomic diversity and potential toxicity of Microcystis
Harmful Algae Volume 113, March 2022, 102186
6)[81]Da Xu Hanxiao Xu Yusen Zhang Rui Gao,Novel Collaborative Weighted Non-negative Matrix Factorization Improves Prediction of Disease-Associated Human Microbes,Front. Microbiol., 10 March 2022
7)[80]Chuanyan Wu [...]Yusen Zhang, PEPRF: Identification of Essential Proteins by Integrating Topological Features of PPI Network and Sequence-Based Features via Random Forest
Current Bioinformatics, June 2021
8)[79]Hengchun Cao Hanxiao Xu Chunhui Ning[...]Yusen Zhang Rui Gao,Multi-Omics Approach Reveals the Potential Core Vaccine Targets for the Emerging Foodborne Pathogen Campylobacter jejuni
Frontiers in Microbiology,June 2021
2021年:
1) [78]Da Xu; Hanxiao Xu; Yusen Zhang; Mingyi Wang; Wei Chen; Rui Gao, MDAKRLS: Predicting human microbe-disease association based on Kronecker regularized least squares and similarities, Journal of Translational Medicine , 19,:66 (2021).
2) [77]Xu, Hanxiao; Xu, Da; Zhang, Naiqian; Zhang, Yusen; Gao, Rui, Protein-Protein Interactions Prediction Based on Spectral Radius and General Regression Neural Network,J. Proteome Res. 2021, 20, 3, 1657–1665（二区）
3) [73] Jialin Zhang, Da Xu, Kaijing Hao, Yusen Zhang, Wei Chen, Jiaguo Liu, Rui Gao, Chuanyan Wu and Yang De Marinis, FS-GBDT: Identification multi-cancer risk module via a feature selection algorithm by integrating Fisher score and GBDT, Brief Bioinform, (2021) May 20;22(3):bbaa189.
4) [72] Da Xu, Hanxiao Xu, Yusen Zhang, Wei Chen, Rui Gao. LncRNA-Protein Interaction Prediction Based on Regularized Nonnegative Matrix Factorization and Sequence Information, MATCH Communications in Mathematical and in Computer Chemistry，85 (2021) 555-574
2020年：
5) [76]Minghui Wang, Xiaowen Cui, ShanLi, Xinhua Yang, Anjun Mad,Yusen Zhang, BinYu, DeepMal: Accurate prediction of protein malonylation sites by deep neural networks, Chemometrics and Intelligent Laboratory Systems, (2020) 207, 15, 104175
6) [75] Da Xu, Jialin Zhang, Hanxiao Xu, Yusen Zhang, Wei Chen, Rui Gao and Matthias Dehmer, Multi-scale supervised clustering-based feature selection for tumor classification and identification of biomarkers and targets on genomic data, BMC Genomics, (2020) 21:650.
7) [74]Lin Wang, Yaguang Chen, Naiqian Zhang, Wei Chen, Yusen Zhang and Rui Gao, QIMCMDA: MiRNA-Disease Association Prediction by q-Kernel Information and Matrix Completion, Frontiers in Genetics, 22 October 2020
8) [71] Xu, D.; Xu, H.; Zhang, Y.; Chen, W.; Gao, R., Protein-Protein Interactions Prediction Based on Graph Energy and Protein Sequence Information. Molecules 2020, 25, 1841.
9) [70] Meng Kong, Yusen Zhang, Da Xu, Wei Chen, Matthias Dehmer, FCTP-WSRC: Protein–Protein Interactions Prediction via Weighted Sparse Representation Based Classification, Frontiers in Genetics (2020) 11:18.
10) Brown,P., RELISH Consortium, Zhou,Y. Large expert-curated database for benchmarking document similarity detection in biomedical literature search. Database (2019) Vol. 2019: article ID baz085; (IF=3.683)
2019年：
11) [69] Wu, Chuanyan; Gao, Rui; Zhang, Yusen and De Marinis, Yang ,PTPD: predicting therapeutic peptides by deep learning and word2vec December 2019,BMC Bioinformatics 20(1) (2019) 20:456.
12) [68]Chuanyan Wu,Rui Gao,Yusen Zhang, mHMDA: Human Microbe-Disease Association Prediction By Matrix Completion and Multi-Source Information, July 2019, IEEE Access (99):1-1 通信作者
13) [67]Matthias Dehmer, Zengqiang Chen, Yongtang Shi , Yusen Zhang, Shailesh Tripathi , Modjtaba Ghorbani, Abbe Mowshowitz, Frank Emmert-Streib, On efficient network similarity measures, Applied Mathematics and Computation, 362(2019), 124521 (IF=2.30)
14) [66] Shenghui Liu; Chunrui Xu; Yusen Zhang; Jiaguo Liu; Bin Yu; Xiaoping Liu; Matthias Dehmer, Feature Selection of Gene Expression Data for Cancer Classification Using Double RBF-kernels, BMC Bioinformatics, 2018, 19:396. (SCI, 通信作者IF=2.21，JCR Q2)
15) [65]M. Kong, Y. Zhang, W. Chen, APGC: Universal Protein Prediction Based on Compositional, Physico-Chemical and Structural Information, MATCH Commun. Math. Comput. Chem. 81 (2019) 193-207 (SCI, IF=2.58, 通信作者)
16) [64] Matthias dehmer; Zengqiang Chen; Frank Emmert-Streib; Abbe Mowshowitz; Yongtang Shi; Shailesh Tripathi; Yusen Zhang, Towards Detecting Structural Branching and Cyclicity in Graphs: A Polynomial-based Approach, Information Sciences, 471, January 2019, 19-28 (IF 4.832).
17) [63]Li Ge, Jiaguo Liu, Yusen Zhang , Matthias Dehmer, Identifying Anticancer Peptides by Using a Generalized Chaos Game Representation, Journal of Mathematical Biology, (2019) 78: 441-463. JAN 2019, 卷: 78 期: 1-2 页: 441-463 (SCI, IF=1.786)
2018年：
18) [62] Chuanyan Wu, Rui Gao, Daoliang Zhang, Shiyun Han, Yusen Zhang, PRWHMDA: Human Microbe-Disease Association Prediction by Random Walk on the Heterogeneous Network with PSO, Int. J. Biol. Sci. 2018; 14(8): 849-857. doi:10.7150/ijbs.24539 (SCI, IF 4.057)
19) [61]Bin Yu, Shan Li, Wenying Qiu, Minghui Wang, Junwei Du, Yusen Zhang and Xing Chen, Prediction of subcellular location of apoptosis proteins by incorporating PsePSSM and DCCA coefficient based on LFDA dimensionality reduction, BMC Genomics (2018) 19:478.
20) [60]Lili Cui, Li Ge, Hongbin Gan, Xiaoping Liu, Yusen Zhang (2018) Ovarian Cancer Identification Based on Feature Weighting for High-Throughput Mass Spectrometry Data. Journal of Systems Biology - 1(1):1-11. ，通信作者
21) [59] Chuanyan Wu, Rui Gao, Yang De Marinis, Yusen Zhang, A novel model for protein sequence similarity analysis based on spectral radius. Journal of Theoretical Biology 446 (2018) 61-70. June 2018 (SCI, IF=1.833)
22) [58] Chunrui Xu, Li Ge, Yusen Zhang, Matthias Dehmer, Ivan Gutman, Computational prediction of therapeutic peptides based on graph index, Journal of Biomedical Informatics 75(2017) 63-69. (SCI, IF=2.753)
2017年：
23) [57] Zheng-Wei Li , Pengyong Han , Zhuhong You, Xiao Li , Yusen Zhang , Haiquan Yu , Ru Nie , Xing Chen , In silico prediction of drug-target interaction networks based on drug chemical structure and protein sequences, Scientific Reports 7, 11174 (2017). (SCI)
24) [56]Bin Yu, Lifeng Lou, Shan Li, Yusen Zhang, Baoguang Tian, Prediction of protein structural class for low-similarity sequences using Chou's pseudo amino acid composition and wavelet denoising, Journal of Molecular Graphics and Modelling 76 (2017) 260–273 . July 2017, (SCI)
25) [55] Lulu Yu, Yusen Zhang, Ivan Gutman, Yongtang Shi, Matthias Dehmer , Protein Sequence Comparison Based on Physicochemical Properties and the Position-Feature Energy Matrix, Scientific Reports 7, 46237 (2017); (SCI，IF 4.26).
26) [54] Yu, L., Zhang, Y., Jian, G. Gutman, I., Classification for microarray data based on K-means clustering combined with modified single-to-noise-ratio based on graph energy, J. Comput. Theor. Nanosci. 14, 598–606 (2017). (SCI)
2016年：
27) [53] Chunrui Xu, Dandan Sun, Shenghui Liu, Yusen Zhang , Protein Sequence Analysis by Incorporating Modified Chaos Game and Physicochemical Properties into Chou's General Pseudo Amino Acid Composition, Journal of Theoretical Biology 406 (2016) 105–115. (SCI, IF=2.049)
28) [52] Huihui Chen, Yusen Zhang, Ivan Gutman, A Kernel-Based Clustering Method for Gene Selection with Gene Expression Data, Journal of Biomedical Informatics, Volume 62, August 2016, Pages 12–20, (SCI, IF=2.447)
29) [51] Dandan Sun, Chunrui Xu, Yusen Zhang, A Novel Method of 2D Graphical Representation for Proteins and Its Application, MATCH Commun. Math. Comput. Chem. 75 (2016) 431-446 (SCI, IF=3.858)
2015年：
30) [50 ] Haiyan Wu, Yusen Zhang, Wei Chen, Zengchao Mu, Comparative analysis of protein primary sequences with graph energy, Physica A 437 (2015) 249–262(SCI, IF=1.732)
2014年：
31) [49 ]Wu J, Zhang Y, Mu Z, Predicting Nucleosome Positioning Based on Geometrically Transformed Tsallis Entropy. PLoS ONE 9(11) (2014): e109395. (SCI, IF=3.534)
32) [48] Yan Su, Yusen Zhang, Wei Chen, Ivan Gutman, Nucleosome Positioning Based on Information Content, MATCH Commun. Math. Comput. Chem. 72(2014), 867-878. (SCI, IF=1.829)
33) [47] Cangzhi Jia, Yusen Zhang, Zhiping Wang, SulfoTyrP: a high accuracy predictor of protein sulfotyrosine sites, MATCH Commun.Math. Comput. Chem. 71 (2014), 227-240 (SCI, IF=1.829)
2013年：
34) [46] Zengchao Mu, Jing Wu, Yusen Zhang, A novel method for similarity/ dissimilarity analysis of protein sequences，Physica A, 392 (2013) 6361–6366. (SCI, IF=1.676) (通讯作者)
35) [45] Yan XR, Yang YH, Zheng XM, Cui JH, Xie X, Li LW, Chen FL, Hua JL, Zhang YS ,Expression of FGF4 mRNA is mediated by mating behaviours in mice, Cell Biochemistry and Function, 2013 Aug; 31(6): 526-31
36) [44]. Shengli Zhang , Yusen Zhang , Ivan Gutman, Analysis of DNA Sequences Based on the Fuzzy Integral. MATCH. 2013. 70(1): 417-430. (SCI, IF=1.768) （他引次数：2）
2012年：SCI 7 篇
37) [43] Jiaguo Liu, Ivan Gutman, Zengchao Mu, Yusen Zhang, q-Wiener index of some compound trees，Applied Mathematics and Computation, 218 (2012), 9528–9535 (SCI)IF 1.317, （他引次数：1）
38) [42] Z. Zhang, Y. Zhang, W. Chen, I. Gutman, Y. Li, Prediction of Nucleosome Positioning Using the Dinucleotide Absolute Frequency of DNA Fragment, MATCH Commun. Math. Comput. Chem. 68 (2012), 639-650. (SCI，通信作者，IF 2.16)1
39) [41] Yusen Zhang, Ivan Gutman, Jiaguo Liu, Zengchao Mu, q-Analog of Wiener Index, MATCH Commun. Math. Comput. Chem. 67 (2012), 347-356. (SCI，通信作者，IF 2.16) （他引次数：4）
40) [40] Guiqian Jian, Yusen Zhang, Panpan Qian, Prediction of Subcellular Localization for Apoptosis Protein: Approached with a Novel Representation and Support Vector Machine, MATCH Commun. Math. Comput. Chem. 67 (2012), 867-878. (SCI，通信作者，IF 2.16) （他引次数：5）
41) [39]W. Chen, Y. Zhang, Comparative Analysis of RNA Molecules, MATCH Commun. Math. Comput. Chem. 67 (2012), 253-268. (SCI，通信作者，IF 2.16) （他引次数：2）
42) [38] Liangyun Ren, Yusen Zhang, Ivan Gutman , Predict the classification of transcription factors by incorporating their binding site properties into a novel mode of Chou’s pseudo amino acid composition, Protein & Peptide Letters, 19(2012), 1170-1176. (SCI，通信作者，IF 1.942 ) （他引次数：5）
43) [37] Zhiqian Zhang, Yusen Zhang, Ivan Gutman, Predicting Nucleosome Positions in Yeast: Using the Absolute Frequency, J. Biomol Struct Dyn 29(5), 1081-1088 (2012). (SCI，通信作者，IF 4.986???) （他引次数：3）
2011年：SCI 4 篇 EI 1 篇 共 25 SCI, 3 EI.
44) [36] Xingqin Qi, Qin Wu,Yusen Zhang, Eddie Fuller, and Cun-Quan Zhang,
45) A Novel Model for DNA Sequence Similarity Analysis Based on Graph Theory, Evolutionary Bioinformatics 2011:7 149–158。 (SCI，IF 2.684) （他引次数：13
46) [35] Panpan Qian, Yusen Zhang, Guiqian Jian, A novel representation of protein sequences and its application, Journal of Convergence Information Technology, 6(2011), 227-235. (EI 期刊，通信作者)
47) [34] Liu, yanqiu, Yusen Zhang, New Invariant of DNA Sequences Based on a New Matrix Representation, Combinatorial Chemistry & High Throughput Screening, 2011, 14, 61-71。(SCI，通信作者，IF2.573)1
48) [33] Yusen Zhang, Wei Chen, A New Measure for Similarity Searching in DNA Sequences, MATCH Commun. Math. Comput. Chem. 65 (2011), 477-488. (SCI，IF 3.291) 5
49) [32] Yusen Zhang, Wei Chen, A Dissimilarity Measure Based on Free Energy of DNA Nearest-neighbor Interaction, J Biomol Struct Dyn 28 (2011), 557- 565. （他引次数：2）(SCI，IF 4.986)
2010年EI 2 篇 SCI 3 篇 Total 20 SCI
50) [31] Yusen Zhang, Xiangtian Yu, Analysis of Protein Sequence Similarity, The Fifth International Conference on Bio-Inspired Computing: Theories and Applications (BIC-TA 2010), 1255-1258。（EI）
51) Yusen Zhang, Liangyun, Ren, Two Feature Selections for Analysis of Microarray Data, The Fifth International Conference on Bio-Inspired Computing: Theories and Applications (BIC-TA 2010), 1259-1262. （EI）
52) [29] Yusen Zhang, Wei Chen, Comparisons of RNA secondary structures based on LZ complexity, MATCH Commun. Math. Comput. Chem. 63 (2010), 513-528 (SCI，IF 3.217) 1
53) [28] Huiling Wang, Yusen Zhang, A new approach to molecular phylogeny of H5N1 avian influenza viruses in Asia, International Journal of Quantum Chemistry, 110 (2010), 1964–1971 （他引次数：2）(SCI,通信作者，IF 1.315)
54) [27] Liu, yanqiu, Zhang, Yusen, A New Method for Analyzing H5N1 Avian Influenza Virus, Journal of Mathematical Chemistry, 47（3）（2010），1129-1144. (SCI,通信作者，IF 1.381)2
2009年：SCI 共2篇
55) [26] W. Chen, Y. Zhang, Comparisons of DNA Sequences Based on Dinucleotide, MATCH Commun. Math. Comput. Chem. 61 (2009), 533-540. （他引次数：３）(SCI,通信作者，IF 3.5) 4
56) [25] W. Chen, Y. Zhang, Three Distances for Rapid Similarity Analysis of DNA Sequences, MATCH Commun. Math. Comput. Chem. 61 (2009), 781-788. （他引次数：５）(SCI,通信作者，IF 3.5) 5
2008年：SCI 共4篇
57) [24] Zhang Yusen, Wang Tianming, Some applications of gasper's bibasic summation formula，Rocky Mountain Journal of Mathematics, 38（2008）703-712。(SCI, IF 0.267)
58) [23] Yusen Zhang, Wei Chen, A new approach to molecular phylogeny of primate mitochondrial DNA, MATCH Commun. Math. Comput. Chem., 59(2008), 625-634。(SCI,通信作者，IF 2.58)
59) [22] Yusen Zhang, Mingshu Tan, Visualization of DNA sequences based on 3DD-Curves, J. Math. Chem. 44 (1) (2008), 206-216。（他引次数：4）(SCI, 通信作者， IF1.057)
60) [21] Yusen Zhang, A simple method to construct the similarity matrices of DNA sequences, MATCH Commun. Math. Comput. Chem. 60 (2008), 313-324。（他引次数：6）(SCI,通信作者，IF 2.58)
2007年 SCI 共4篇
61) [20] Zhang Yu-sen, Liao Bo, On the similarity of DNA sequences based on 3-D graphical representation, 生物数学学报, 22(4)(2007),583-590。
62) [19] Yusen Zhang, On 3D Graphical Representation of RNA Secondary Structure, MATCH Commun. Math. Comput. Chem., 57 (2007), 157-168。（他引次数：7）(SCI, IF 2.00)
63) [18] Yusen Zhang, On 2D Graphical Representation of RNA Secondary Structure, MATCH Commun. Math. Comput. Chem. , 57 (2007), 697-710。（他引次数：5）(SCI, IF 2.00)
64) [17] Yusen Zhang, Wei Chen , Analysis of Similarity/Dissimilarity of Long DNA Sequences Based on Three 2DD-Curves, Combinatorial Chemistry & High Throughput Screening, 10 (2007), 231-237. (SCI, IF2.55) （他引次数：3）
65) [16] Yusen Zhang, Wei Chen , New Invariant of DNA Sequences, MATCH Commun. Math. Comput. Chem., 58 (2007), 207-218。（他引次数：5）(SCI, IF 2.00)
66) [15] Yusen Zhang, Wei Chen, Invariants of DNA Sequences Based on 2DD-Curves, Journal of Theoretical Biology, 242 (2006), 382-388。（他引次数：12）(SCI , IF2.264)
67) [14] Yusen Zhang, Bo Liao，Kequan Ding， On 3DD-Curves of DNA Sequences，Molecular Simulation, 32(1)(2006), 29–34。（被引用次数：19）(SCI，IF 1.084)
68) [13] Zhang Yu-Sen，Chen Wei, Liao Bo，Gong Xin-Bo，A method for obtaining integrable couplings，Commun. Theor. Phys. , 45 (6) ( 2006). 1000-1002。(SCI，IF 0.726)
69) [12] Bo Liao, Yusen Zhang, Kequan Ding, Tianming Wang, Analysis of similarity/ dissimilarity of DNA sequences based on a condensed curve representation, Journal of Molecular Structure: THEOCHEM, 717(2005), 199-203. （被引用次数：63）(SCI，IF 1.112)
70) [11] Jiaquan Zhan, Bo Liao, Yusen Zhang, Numerical characterization of RNA secondary structure, Internet Electronic Conference of Molecular Design 2004, IECMD 2004, Nov. 23 – Dec. 6。
71) [10] Yusen Zhang, Bo Liao, Kequan Ding， On 2D Graphical Representation of DNA Sequence of Nondegeneracy, Chemical Physics Letters，411(2005) , 28-32. （被引用次数：24）(SCI，IF 2.207)
72) [9] Tan Mingshu and Zhang Yusen, A Note on the Bivariate and Trivariate Fibonacci Polynomials, The Southeast Asian Bulletin of Mathematics, 32(2005) 975–990.
73) [8] ZHANG Yusen, Kequan Ding, Another proof of C. Krattenthaler's matrix inverse, 中科院研究生院学报，23 (2006) 577-580。
74) [7] ZHANG Yu_feng and ZHANG Yusen, A type of multi-component integrable hierarchy, Chinese Physics, 13(8) (2004) 1183-1186. (SCI，IF 0.207)
75) [6] 张玉森，陈伟，带参数l的Bailey 引理，山东大学学报工学版 34（4）（2004）35-39。（ＥＩ期刊）
76) [5] ZHANG Yusen, Chen Wei, q-Triplicate Inverse Series Relations with Applications to q-series， Rocky Mountain Journal of Mathematics, 35（4）（2005）1407-1427。(SCI, IF0.354)
77) [3] ZHANG Yusen, WANG Tianming, Note on Summation Formulas Derived From an Identity of F. H. Jackson，The Australasian Journal of Combinatorics 28 (2003) 295-304。MR1999202 (2005i:05014).
