As first author or corresponding author:

122. Hui Yang, Wuritu Yang, Fu-Ying Dao, Hao Lv, Hui Ding*, Wei Chen*, Hao Lin*. (2019) A comparison and assessment of computational method for identifying recombination hotspots in Saccharomyces cerevisiae. Briefings in Bioinformatics, accepted. (2018 IF: 9.101)

121. Wei Chen*, Pengmian Feng, Xiaoming Song, Hao Lv, Hao Lin*. (2019) iRNA-m2G: identifying N2-methylguanosine sites based on sequence derived information. Molecular Therapy - Nucleic Acids, DOI: 10.1016/j.omtn.2019.08.023. (2018 IF: 5.919)

120. Wei Chen*, Pengmian Feng, Xiaoming Song, Hao Lv, Hao Lin*. (2019) iRNA-m7G: identifying N7-methylguanosine sites by fusing multiple features. Molecular Therapy - Nucleic Acids, DOI:10.1016/j.omtn.2019.08.022. (2018 IF: 5.919)

119. Kewei Liu, Wei Chen*, Hao Lin*. (2019) XG-PseU: an eXtreme Gradient Boosting based method for identifying pseudouridine sites. Molecular Genetics and Genomics, DOI:10.1007/s00438-019-01600-9. (2018 IF: 2.879)

118. Wei Chen*, Fulei Nie, Hui Ding*. (2019) Recent Advances of Computational Methods for Identifying Bacteriophage Virion Proteins. Protein & Peptide Letters, DOI: 10.2174/0929866526666190410124642. (2018 IF: 1.168)

117. Fang Wang, Zheng-Xing Guan, Fu-Ying Dao, Hui Ding*. (2019) A brief review on the computational identification of antifreeze protein. Current Organic Chemistry, DOI: 10.2174/1385272823666190718145613. (2018 IF: 2.029)

116. Zhao-Chun Xu, Peng-Mian Feng, Hui Yang, Wang-Ren Qiu, Wei Chen*, Hao Lin*. (2019) iRNAD: a computational tool for identifying D modification sites in RNA sequence. Bioinformatics, DOI: 10.1093/bioinformatics/btz358. (2018 IF: 4.531)

115. Hao Lv, Zi-Mei Zhang, Shi-Hao Li, Jiu-Xin Tan, Wei Chen*, Hao Lin*. (2019) Evaluation of different computational methods on 5-methylcytosine sites identification. Briefings in Bioinformatics, DOI: 10.1093/bib/bbz048. (2018 IF: 9.101)

114. Guoqing Liu*, Guojun Liu, Jiu-Xin Tan, Hao Lin*. (2019) DNA physical properties outperform sequence compositional information in classifying nucleosome-enriched and -depleted regions. Genomics, DOI: 10.1016/j.ygeno.2018.07.013. (2018 IF: 3.16)

113. Hao Lv, Fu-Ying Dao, Zheng-Xing Guan, Dan Zhang, Jiu-Xin Tan, Yong Zhang*, Wei Chen*, Hao Lin*. (2019) iDNA6mA-Rice: a computational tool for detecting N6-methyladenine sites in rice. Frontiers in Genetics, 10:793. (2018 IF: 3.517)

112. Wei Chen*, Hao Lv, Fulei Nie, Hao Lin*. (2019) i6mA-Pred:Identifying DNA N6-methyladenine sites in the rice genome. Bioinformatics, 35(16): 2796–2800. (2018 IF: 4.531)

111. Hao Lin*, Zhi-Yong Liang, Hua Tang, Wei Chen*. (2019) Identifying sigma70 promoters with novel pseudo nucleotide composition. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 16(4): 1316-1321. (2018 IF: 2.896) (ESI)

110. Yun Wu*, Zhiquan He, Hao Lin*, Yufei Zheng, Jingfen Zhang, Dong Xu*. (2019) A fast projection-based algorithm for clustering big data. Interdisciplinary Sciences: Computational Life Sciences, 11(3): 360-366. (2018 IF: 1.418)

109. Hong-Yan Lai&, Zhao-Yue Zhang&, Zhen-Dong Su, Wei Su, Hui Ding, Wei Chen*, Hao Lin*. (2019) iProEP: a computational predictor for predicting promoter. Molecular Therapy - Nucleic Acids, 17: 337-346. (2018 IF: 5.919)

108. Fu-Ying Dao, Hao Lv, Fang Wang, Chao-Qin Feng, Hui Ding*, Wei Chen*, Hao Lin*. (2019) Identify origin of replication in Sccharomyces cerevisiae using two-step feature selection technique. Bioinformatics, 35(12):2075-2083. (2018 IF: 4.531) (ESI)

107. Huan-Huan Wei, Wuritu Yang, Hua Tang, Hao Lin*. (2019) The development of machine learning methods in cell-penetrating peptides identification: a brief review. Current Drug Metabolism, 20(3): 217-223. (2018 IF: 2.277)

106. Chao-Qin Feng, Zhao-Yue Zhang, Xiao-Juan Zhu, Yan Lin, Wei Chen*, Hua Tang*, Hao Lin*. (2019) iTerm-PseKNC: a sequence-based tool for predicting bacterial transcriptional terminators. Bioinformatics, 35(9): 1469-1477. (2018 IF: 4.531) (ESI, hot)

105. Jiu-Xin Tan, Shi-Hao Li, Zi-Mei Zhang, Cui-Xia Chen, Wei Chen*, Hua Tang*, Hao Lin*. (2019) Identification of hormone binding proteins based on machine learning methods. Mathematical Biosciences and Engineering, 16(4): 2466-2480. (2018 IF: 1.313)

104. Jiu-Xin Tan, Hao Lv, Fang Wang, Fu-Ying Dao, Wei Chen*, Hui Ding*. (2019) A survey for predicting enzyme family classes using machine learning methods. Current Drug Targets, 20(5): 540-550. (2018 IF: 2.642)

103. Li Liu*, Qian-Zhong Li*, Wen Jin, Hao Lv, Hao Lin*. (2019) Revealing gene function and transcription relationship by reconstructing gene-level chromatin interaction. Computational and Structural Biotechnology Journal, 17: 195-205. (2018 IF: 4.72)

102. Wuritu Yang, Xiao-Juan Zhu, Jian Huang, Hui Ding, Hao Lin*. (2019) A brief survey of machine learning methods in protein sub-Golgi localization. Current Bioinformatics, 14: 234-240. (2018 IF: 1.189)

101. Wei Chen*, Xiaoming Song, Hao Lin*. (2019) Combinatorial pattern of histone modifications in exon skipping event. Frontiers in Genetics, 10: 122. (2018 IF: 3.517)

100. Pengmian Feng, Hui Yang, Hui Ding, Hao Lin*, Wei Chen*, Kuo-Chen Chou*. (2019) iDNA6mA-PseKNC: Identifying DNA N6-methyladenosine sites sites by incorporating nucleotide physicochemical properties into PseKNC. Genomics, 111(1): 96-102. (2018 IF: 3.16) (ESI, Hot)

99. Xiao-Juan Zhu, Chao-Qin Feng, Hong-Yan Lai, Wei Chen*, Hao Lin*. (2019) Predicting protein structural classes for low-similarity sequences by evaluating different features. Knowledge-Based Systems, 163: 787-793. (2018 IF: 5.101) (ESI)


98. Zhen-Dong Su, Yan Huang, Zhao-Yue Zhang, Ya-Wei Zhao, Dong Wang, Wei Chen*, Kuo-Chen Chou*, Hao Lin*. (2018) iLoc-lncRNA: predict the subcellular location of lncRNAs by incorporating octamer composition into general PseKNC. Bioinformatics, 34(24): 4196-4204. (2017 IF: 5.481) (ESI, Hot)

97. Fu-Ying Dao, Hao Lv, Fang Wang, Hui Ding*. (2018) Recent advances on the machine learning methods in identifying DNA replication origins in eukaryotic genomics. Frontiers in Genetics, 9: 613. (2017 IF: 4.151)

96. Hui Yang, Hao Lv, Hui Ding, Wei Chen*, Hao Lin*. (2018) iRNA-2OM: A sequence-based predictor for identifying 2’-O-methylation sites in Homo sapiens. Journal of Computational Biology, 25(11): 1266-1277. (2017 IF: 1.191) (Hot, ESI)

95. Hong-Yan Lai, Chao-Qin Feng, Zhao-Yue Zhang, Hua Tang, Wei Chen*, Hao Lin*. (2018) A brief survey of machine learning application in cancerlectins identification. Current Gene Therapy, 18(5): 257-267. (2017 IF: 1.943)

94. Wei Chen*, Peng-Mian Feng, Hui Ding, Hao Lin*. (2018) Classifying included and excluded exons in exon skipping event using histone modifications. Frontiers in Genetics, 9: 433. (2017 IF: 4.151)

93. Wei Chen*, Hui Ding, Xu Zhou, Hao Lin*, Kuo-Chen Chou*. (2018) iRNA(m6A)-PseDNC: Identifying N6-methyladenosine sites using pseudo dinucleotide composition. Analytical Biochemistry, 561: 59–65. (2017 IF: 2.275)(ESI, Hot)

92. Jing-Hui Cheng, Hui Yang, Meng-Lu Liu, Wei Su, Peng-Mian Feng, Hui Ding*, Wei Chen*, Hao Lin*. (2018) Prediction of bacteriophage proteins located in the host cell using hybrid features. Chemometrics and Intelligent Laboratory Systems, 180: 64-69. (2017 IF: 2.701)

91. Lifen Shao, Hui Gao*, Zhen Liu, Juan Feng, Lixia Tang, Hao Lin*. (2018) Identification of antioxidant proteins with deep learning from sequence information. Frontiers in Pharmacology, 9: 1036. (2017 IF: 3.831)

90. Jiu-Xin Tan, Fu-Ying Dao, Hao Lv, Peng-Mian Feng *, Hui Ding * (2018) Identifying Phage Virion Proteins by Using Two-Step Feature Selection Methods. Molecules, 23(8): 2000. (2017 IF: 3.098)

89. Yanyuan Pan, Hui Gao*, Hao Lin*, Zhen Liu, Lixia Tang, Songtao Li. (2018) Identification of Bacteriophage Virion Proteins Using Multinomial Naïve Bayes with g-Gap Feature Tree. International Journal of Molecular Sciences, 19(6): 1779. (2017 IF: 3.687)

88. Hao Lin, Shaoliang Peng, Jian Huang*. (2018) Special issue on Computational Resources and Methods in Biological Sciences International Journal of Biological Sciences, 19(6): 1779. (2017 IF: 4.057)(Special Issue)

87. Hua Tang*, Ya-Wei Zhao, Ping Zou, Chun-Mei Zhang, Rong Chen, Po Huang, Hao Lin*. (2018) HBPred: a tool to identify growth hormone-binding proteins. International Journal of Biological Sciences, 14(8): 957-964. (2017 IF: 4.057) (ESI)

86. Hui Yang, Wang-Ren Qiu, Guoqing Liu, Feng-Biao Guo, Wei Chen*, Kuo-Chen Chou*, Hao Lin*. (2018) iRSpot-Pse6NC: Identifying recombination spots in Saccharomyces cerevisiae by incorporating hexamer composition into general PseKNC. International Journal of Biological Sciences, 14(8): 883-891. (2017 IF: 4.057) (ESI, Hot)

85. Jidong Zhang, Pengmian Feng, Hao Lin*, Wei Chen*. (2018) Identifying RNA N-6-methyladenosine sites in Escherichia coli genome. Frontiers in Microbiology, 9: 955. (2017 IF: 4.019)

84. Wei Chen*, Pengmian Feng, Hui Yang, Hui Ding, Hao Lin*, Kuo-Chen Chou. (2018) iRNA-3typeA: identifying three types of modification at RNA’s adenosine sites. Molecular Therapy - Nucleic Acids, 11: 468-474. (2017 IF: 5.660) (ESI, Hot)


83. Wang-Ren Qiu, Bi-Qian Sun, Hua Tang, Jian Huang*, Hao Lin*. (2017) Identify and analysis crotonylation sites in histone by using support vector machines. Artificial Intelligence In Medicine, 83: 75-81. (2016 IF: 2.009)

82. Pengmian Feng, Jidong Zhang, Hua Tang, Wei Chen*, Hao Lin* (2017) Predicting the Organelle Location of Noncoding RNAs Using Pseudo Nucleotide Compositions. Interdisciplinary Sciences: Computational Life Sciences, 9: 540–544. (2016 IF: 0.753)

81. Wei Chen*, Hui Yang, Peng-Mian Feng, Hui Ding, Hao Lin*, (2017) iDNA4mC: identifying DNA N4-methylcytosine sites based on nucleotide chemical properties. Bioinformatics, 33(22): 3518-3523. (2016 IF: 7.307) (ESI, Hot)

80. Hao Lin*, (2017) Editorial: Development and Application of Feature Selection Techniques in Protein Data Analysis and Prediction. Letters in Organic Chemistry, 14(9): 619-620. (2016 IF: 0.73) (Special Issue)

79. Ya-Wei Zhao, Zhen-Dong Su, Wuritu Yang, Hao Lin*, Wei Chen*, Hua Tang* (2017) IonchanPred 2.0: a tool to predict ion channels and their types. International Journal of Molecular Sciences, 18: 1838. (2016 IF: 3.226)

78. Peng-Mian Feng, Hui Ding, Hao Lin*, Wei Chen*. (2017) AOD: the antioxidant protein database. Scientific Reports, 7: 7449. (2016 IF: 4.259)

77. Fu-Ying Dao, Hui Yang, Zhen-Dong Su, Wuritu Yang, Yun Wu, Ding Hui, Wei Chen*, Hua Tang*, Hao Lin*. (2017) Recent advances in conotoxin classification by using machine learning methods. Molecules, 22: 1057. (2016 IF: 2.861)

76. Hong-Yan Lai, Xin-Xin Chen, Wei Chen, Hua Tang*, Hao Lin*. (2017) Sequence-based predictive modeling to identify cancerlectins. Oncotarget, 8(17): 28169-28175. (2016 IF: 5.168) (ESI)

75. Pengmian Feng, Hui Ding, Hui Yang, Wei Chen*, Hao Lin*, and Kuo-Chen Chou*. (2017) iRNA-PseColl: Identifying the occurrence sites of different RNA modifications by incorporating collective effects of nucleotides into PseKNC. Molecular Therapy - Nucleic Acids, 7: 155–163. (2016 IF: 6.392) (ESI, Hot)

74. Wei Chen*, Hua Tang, Hao Lin*. (2017) MethyRNA: a web server for identification of N6-methyladenosine sites. Journal of Biomolecular Structure & Dynamics, 35(3): 683-687. (2016 IF: 3.123)

73. Zhi-Yong Liang, Hong-Yan Lai, Huan Yang, Chang-Jian Zhang, Hui Yang, Huan-Huan Wei, Xin-Xin Chen, Ya-Wei Zhao, Zhen-Dong Su, Wen-Chao Li, En-Ze Deng, Hua Tang, Wei Chen*, Hao Lin* (2017) Pro54DB: a database for experimentally verified sigma-54 promoters. Bioinformatics, 33(3): 467-469. (2016 IF: 7.307) (ESI)

72. Wei Chen*, Pengmian Feng, Hui Yang, Hui Ding, Hao Lin*, Kuo-Chen Chou. (2017) iRNA-AI: identifying the adenosine to inosine editing sites in RNA sequences. Oncotarget, 8(3): 4208-4217. (2016 IF: 5.168) (ESI)

71. Ting Zhang, Puwen Tan, Liqiang Wang, Nana Jin, Yana Li, Lin Zhang, Huan Yang, Zhenyu Hu, Lining Zhang, Chunyu Hu, Chunhua Li, Kun Qian, Changjian Zhang, Yan Huang, KongningLi*, Hao Lin*, Dong Wang*. (2017) RNALocate: a resource for RNA Subcellular Localizations. Nucleic Acids Research, 45(D1): D135-D138. (2016 IF: 10.162) (ESI)


70. Chang-Jian Zhang, Hua Tang, Wen-Chao Li, Hao Lin*, Wei Chen*, Kuo-Chen Chou*. (2016) iOri-Human: identify human origin of replication by incorporating dinucleotide physicochemical properties into pseudo nucleotide composition. Oncotarget, 7(43): 69783-69793. (2015 IF: 5.008)(ESI, Hot)

69. Wei Chen*, Pengmian Feng, Hui Ding, Hao Lin*. (2016) PAI: Predicting adenosine to inosine editing sites by using pseudo nucleotide compositions. Scientific Reports, 6: 3512. (2015 IF: 5.228)

68. Ya-Wei Zhao, Hong-Yan Lai, Hua Tang, Wei Chen*, Hao Lin*. (2016) Prediction of phosphothreonine sites in human proteins by fusing different features. Scientific Reports, 6: 34817. (2015 IF: 5.228)

67. Wei Chen*, Pengmian Feng, Hui Ding, Hao Lin*. (2016) Identifying N(6)-methyladenosine sites in the Arabidopsis thaliana transcriptome. Molecular Genetics and Genomics, 291(6): 2225-2229. (2015 IF: 2.622)

66. Peng-Mian Feng, Hui Ding, Wei Chen*, Hao Lin*. (2016) Identifying RNA 5-methylcytosine sites via pseudo nucleotide compositions. Molecular BioSystems, 12(11): 3307-3311. (2015 IF: 2.829)

65. Hui Ding, Wuritu Yang, Hua Tang, Peng-Mian Feng, Jian Huang, Wei Chen*, Hao Lin*. (2016) PHYPred: a tool for identifying bacteriophage enzymes and hydrolases. Virologica Sinica, 31(2): 350-352. (2015 IF: )

64. Huan Yang, Hua Tang, Xin-Xin Chen, Chang-Jian Zhang, Pan-Pan Zhu, Hui Ding, Wei Chen*, Hao Lin*. (2016) Identification of secretory proteins in mycobacterium tuberculosis using pseudo amino acid composition. BioMed Research International, 2016: 5413903. (2015 IF: 2.134)(ESI)

63. Wei Chen*, Pengmian Feng, Hua Tang, Hui Ding, Hao Lin*. (2016) RAMPred: identifying the N-1-methyladenosine sites in eukaryotic transcriptomes. Scientific Reports, 6: 31080. (2015 IF: 5.228)

62. Hua Tang*, Ping Zou, Chunmei Zhang, Rong Chen, Wei Chen*, Hao Lin*. (2016) Identification of apolipoprotein using feature selection technique. Scientific Reports, 6: 30441. (2015 IF: 5.228)

61. Wei Chen*, Hua Tang, Jing Ye, Hao Lin*, Kuo-Chen Chou*. (2016) iRNA-PseU: Identifying RNA pseudouridine sites. Molecular Therapy - Nucleic Acids, 5: e332. (2015 IF: 5.048)(ESI)

60. Hua Tang*, Zhen-Dong Su, Huan-Huan Wei, Wei Chen, Hao Lin*. (2016) Prediction of cell-penetrating peptides with feature selection techniques. Biochemical and Biophysical Research Communications, 477: 150-154. (2015 IF: 2.371)

59. Xin-Xin Chen, Hua Tang, Wen-Chao Li, Hao Wu, Wei Chen*, Hui Ding*, Hao Lin*. (2016) Identification of Bacterial Cell Wall Lyases via Pseudo Amino Acid Composition. BioMed Research International, 2016: 1654623. (2015 IF: 2.134)

58. Wei Chen*, Pengmian Feng, Hua Tang, Hui Ding, Hao Lin*. (2016) Identifying 2′-O-methylationation sites by integrating nucleotide chemical properties and nucleotide compositions. Genomics, 107: 255-258. (2014 IF: 2.284)

57. Pengmian Feng, Wei Chen*, Hao Lin*. (2016) Identifying antioxidant proteins by using optimal dipeptide compositions. Interdisciplinary Sciences: Computational Life Sciences, 8: 186-191. (2014 IF: 0.662)

56. Yun Wu, Hua Tang, Wei Chen, Hao Lin*. (2016) Predicting human enzyme family classes by using pseudo amino acid composition. Current Proteomics, 13(2): 99-104. (2014 IF: 0.635)

55. Wei Chen*, Hui Ding, Peng-Mian Feng, Hao Lin*, Kuo-Chen Chou*. (2016) iACP: a sequence-based tool for identifying anticancer peptides. Oncotarget, 7(13): 16895-16909. (2014 IF: 6.359)(ESI)

54. Hua Tang*, Wei Chen, Hao Lin*. (2016) Identification of immunoglobulins using Chou’s pseudo amino acid composition with feature selection technique. Molecular BioSystems, 12: 1269-1275. (2014 IF: 3.21)(ESI)

53. Hui Ding*, Zhi-Yong Liang, Feng-Biao Guo, Jian Huang, Wei Chen*, Hao Lin*. (2016) Predicting bacteriophage proteins located in host cell with feature selection technique. Computers in Biology and Medicine, 71: 156–161. (2014 IF: 1.240)

52. Wei Chen*, Pengmian Feng, Hui Ding, Hao Lin*, Kuo-Chen Chou*. (2016) Using deformation energy to analyze nucleosome positioning in genomes. Genomics, 107: 69–75. (2014 IF: 2.284)(ESI)


51. Hao Lin*, Wei-Xin Liu, Jiao He, Xin-Hui Liu, Hui Ding, Wei Chen*. (2015) Predicting cancerlectins by the optimal g-gap dipeptides. Scientific Reports, 5: 16964. (2014 IF: 5.578)

50. Wei Chen*, Pengmian Feng, Hui Ding, Hao Lin*, Kuo-Chen Chou*. (2015) iRNA-Methyl: Identifying N-6-methyladenosine sites using pseudo nucleotide compositions. Analytical Biochemistry, 490: 26-33. (2014 IF: 2.219) (ESI, hot)

49. Wei Chen*, Hao Lin*, Kuo-Chen Chou*. (2015) Pseudo nucleotide composition or PseKNC: an effective formulation for analyzing genomic sequences. Molecular BioSystems, 11: 2620-2634. (2014 IF: 3.183) (ESI)

48. Hui Ding*, Dongmei Li*. (2015) Identification of mitochondrial proteins of malaria parasite using analysis of variance. Amino Acids, 47(2): 329-333. (2013 IF: 3.653)

47. Pan-Pan Zhu, Wen-Chao Li, Zhe-Jin Zhong, En-Ze Deng, Hui Ding*, Wei Chen*, Hao Lin*. (2015) Predicting the subcellular localization of mycobacterial proteins by incorporating the optimal tripeptides into the general form of pseudo amino acid composition. Molecular Biosystems, 11: 558-563. (2013 IF: 3.183) (ESI)

46. Wen-Chao Li, En-Ze Deng, Hui Ding*, Wei Chen*, Hao Lin* (2015) iORI-PseKNC: a predictor for identifying origin of replication with pseudo k-tuple nucleotide composition. Chemometrics and Intelligent Laboratory Systems, 141: 100-106. (2013 IF: 2.381)


45. Hao Lin*, En-Ze Deng, Hui Ding, Wei Chen*, Kuo-Chen Chou*. (2014) iPro54-PseKNC: a sequence-based predictor for identifying sigma-54 promoters in prokaryote with pseudo k-tuple nucleotide composition. Nucleic Acids Research, 42(21): 12961-12972. (2013 IF: 8.808) (ESI hot)

44. Wen-Chao Li, Zhe-Jin Zhong, Pan-Pan Zhu, En-Ze Deng, Hui Ding*, Wei Chen*,Hao Lin*. (2014) Sequence analysis of origins of replication in the Saccharomyces cerevisiae genomes. Frontiers in Microbiology, 5: 574. (2013 IF: 3.9)

43. Pengmian Feng*, Wei Chen, Hao Lin*. (2014) Prediction of CpG island methylation status by integrating DNA physicochemical properties. Genomics, 104(4): 229-233. (2013 IF: 2.793)

42. Wei Chen*, Hao Lin*, Pengmian Feng, Jinpeng Wang. (2014) Exon skipping event prediction based on histone modifications. Interdisciplinary Sciences: Computational Life Sciences, 6(3): 241-249. (2013 IF: 0.672)

41. Hui Ding, Hao Lin*, Wei Chen*, Zi-Qiang Li, Feng-Biao Guo, Jian Huang, Nini Rao. (2014) Prediction of protein structural classes based on feature selection technique. Interdisciplinary Sciences: Computational Life Sciences, 6(3): 235-240. (2013 IF: 0.672)

40. Wei Chen*, Peng-Mian Feng, En-Ze Deng, Hao Lin*, Kuo-Chen Chou*. (2014) iTIS-PseTNC: a sequence-based predictor for identifying translation initiation site in human genes using pseudo trinucleotide composition. Analytical Biochemistry, 462: 76-83. (2012 IF: 2.582) (ESI hot)

39. Wei-Xin Liu, En-Ze Deng, Wei Chen, Hao Lin*. (2014) Identifying the subfamilies of voltage-gated potassium channels using feature selection technique. International Journal of Molecular Sciences, 15: 12940-12951. (2012 IF: 2.464)

38. Hui Ding*, Peng-Mian Feng, Wei Chen*, Hao Lin*. (2014) Identification of bacteriophage virion proteins by the ANOVA feature selection and analysis. Molecular Biosystems, 10: 2229-2235. (2012 IF: 3.35)

37. Hui Ding*, En-Ze Deng, Lu-Feng Yuan, Li Liu, Hao Lin*, Wei Chen*, Kuo-Chen Chou. (2014) iCTX-Type: A sequence-based predictor for identifying the types of conotoxins in targeting ion channels. BioMed Research International, ID 286419. (2012 IF: 2.880) (ESI)

36. Shou-Hui Guo, En-Ze Deng, Li-Qin Xu, Hui Ding, Hao Lin*, Wei Chen*, Kuo-Chen Chou*. (2014) iNuc-PseKNC: a sequence-based predictor for predicting nucleosome positioning in genomes with pseudo k-tuple nucleotide composition. Bioinformatics, 30(11): 1522-1529. (2012 IF: 5.323) (ESI hot)

35. Wei Chen*, Peng-Mian Feng, Hao Lin*, Kuo-Chen Chou. (2014) iSS-PseDNC: identifying splicing sites using pseudo dinucleotide composition. BioMed Research International, ID 623149. (2012 IF: 2.880) (ESI)

34. Wei Chen*, Tian-Yu Lei, Dian-Chuan Jin, Hao Lin*, Kuo-Chen Chou*. (2014) PseKNC: a flexible web server for generating pseudo K-tuple nucleotide composition. Analytical Biochemistry, 456: 53-60. (2012 IF: 2.582) (ESI)

33. Pengmian Feng*, Hao Lin*, Wei Chen, Yongchun Zuo. (2014) Predicting the types of J-proteins using clustered amino acids. BioMed Research International, ID 935719. (2012 IF: 2.880)

32. Wei Chen*, Hao Lin*, Pengmian Feng. (2014) DNA physical parameters modulate nucleosome positioning in the Saccharomyces cerevisiae genome. Current Bioinformatics, 9(2): 188-193. (2012 IF: 2.017)


31. Hao Lin*, Wei Chen*, Hui Ding. (2013) AcalPred: A sequence-based tool for discriminating between acidic and alkaline enzymes. PloS One, 8(10): e75726. (2011 IF: 4.092)

30. Peng-Mian Feng, Wei Chen*, Hao Lin*, Kuo-Chen Chou*. (2013) iHSP-PseRAAAC: Identifying the heat shock protein families using pseudo reduced amino acid alphabet composition. Analytical Biochemistry, 442(1): 118-125. (2012 IF: 2.582) (ESI)

29. Peng-Mian Feng, Hao Lin*, Wei Chen*. (2013) Identification of antioxidants from sequence information using Naive Bayes. Computational and Mathematical Methods in Medicine, ID 567529. (2012 IF: 0.791)

28. Hao Lin*, Wei Chen*, Lu-Feng Yuan, Zi-Qiang Li, Hui Ding. (2013) Using over-represented tetrapeptides to predict protein submitochondria locations. Acta Biotheoretica, 61(2): 259-268. (2012 IF: 0.95) {Featured as Key Scientific Article in Global Medical Discovery}

27. Peng-Mian Feng, Hui Ding, Wei Chen*, Hao Lin*. (2013) Naive Bayes classifier with feature selection to identify phage virion proteins. Computational and Mathematical Methods in Medicine, ID 530696. (2012 IF: 0.791) (ESI)

26. Hui Ding*, Shou-Hui Guo, En-Ze Deng, Lu-Feng Yuan, Feng-Biao Guo, Jian Huang, Nini Rao, Wei Chen*, Hao Lin*. (2013) Prediction of Golgi-resident protein types by using feature selection technique. Chemometrics and Intelligent Laboratory Systems, 124: 9-13. (2012 IF: 2.291)

25. Wei Chen*, Peng-Mian Feng, Hao Lin*, Kuo-Chen Chou*. (2013) iRSpot-PseDNC: Identify recombination spots with pseudo dinucleotide composition. Nucleic Acids Research, 41(6): e68. (2012 IF: 8.278) (ESI)

24. Hao Lin*, Chen Ding, Lu-Feng Yuan, Wei Chen*, Hui Ding, Zi-Qiang Li, Feng-Biao Guo, Jian Huang, Ni-Ni Rao. (2013) Predicting subchloroplast locations of proteins based on the general form of Chou's pseudo amino acid composition: approached from optimal tripeptide composition. International Journal of Biomathematics, 6(2): 1350003. (2012 IF: 0.63)

23. Hui Ding, Hao Lin*, Juan Feng. (2013) The rate of opening and closing of the DNA gate for topoisomerase II. Theory in Biosciences, 132(1): 61-64. (2012 IF: 0.925)

22. Lu-Feng Yuan, Chen Ding, Shou-Hui Guo, Hui Ding*, Wei Chen*, Hao Lin*. (2013) Prediction of the types of ion channel-targeted conotoxins based on Radial Basis Function Network. Toxicology in Vitro, 27: 852-856. (2011 IF: 2.775)


21. Chen Ding, Lu-Feng Yuan, Shou-Hui Guo, Hao Lin*, Wei Chen*. (2012) Identification of mycobacterial membrane proteins and their types using over-represented tripeptide compositions. Journal of Proteomics, 77: 321-328. (2010 IF: 5.074)

20. Wei Chen*, Hao Lin*, Peng-Mian Feng, Chen Ding, Yong-Chun Zuo, Kuo-Chen Chou*. (2012) iNuc-PhysChem: A sequence-based predictor for identifying nucleosomes via physicochemical properties. PLoS One, 7(10): e47843. (2010 IF: 4.411) {Reported by VerticalNews} (ESI)

19. Wei Feng, Hui Ding*, Hao Lin, Liao-Fu Luo. (2012) The lysogeny/lysis switch and entropies of stationary states in λ phage. Acta Physica Sinica (in chinese), 61(16): 168701. (2012 IF: 1.016)

18. Hao Lin*, Chen Ding, Qiang Song, Ping Yang, Hui Ding, Ke-Jun Deng, Wei Chen*. (2012) The prediction of protein structural class using averaged chemical shifts. Journal of Biomolecular Structure & Dynamics, 29(6): 643-648. (2010 IF: 4.986)

17. Wei Chen*, Pengmian Feng, Hao Lin*. (2012) Prediction of replication origins by calculating DNA structural properties. FEBS Letters, 586(6): 934-938. (2012 IF: 3.582)

16. Wei Chen*, Hao Lin*. (2012) Identification of voltage-gated potassium channel subfamilies from sequence information using support vector machine. Computers in Biology and Medicine, 42(4): 504-507. (2012 IF: 1.162)

15. Wei Chen*, Pengmian Feng, Hao Lin*. (2012) Prediction of ketoacyl synthase family using reduced amino acid alphabet. Journal of Industrial Microbiology & Biotechnology, 39(4): 579-584. (2011 IF: 2.735)


14. Hui Ding*, Liao-Fu Luo, Hao Lin. (2011) Entropy production rate changes in lysogeny/lysis switch regulation of bacteriophage lambda. Communications in Theoretical Physics, 55(2): 371-375. (2011 IF: 0.747)

13. Hao Lin*, Qian-Zhong Li. (2011) Eukaryotic and prokaryotic promoter prediction using hybrid approach. Theory in Biosciences, 130(2): 91-100. (2011 IF: 0.979)

12. Hao Lin*, Wei Chen. (2011) Prediction of thermophilic proteins using feature selection technique. Journal of Microbiological Methods, 84(1): 67-70. (2011 IF: 2.086)

11. Hui Ding, Li Liu, Feng-Biao Guo, Jian Huang, Hao Lin*. (2011) Identify Golgi protein types with modified Mahalanobis discriminant algorithm and pseudo amino acid composition. Protein & Peptide Letters, 18(1): 58-63. (2011 IF: 1.942)

10. Hao Lin*, Hui Ding. (2011) Predicting ion channels and their types by the dipeptide mode of pseudo amino acid composition. Journal of Theoretical Biology, 269(1): 64-69. (2011 IF: 2.208)


9. Hao Lin*, Hui Ding, Feng-Biao Guo, Jian Huang. (2010) Prediction of subcellular location of mycobacterial protein using feature selection techniques. Molecular Diversity, 14(4): 667-671. (2010 IF: 3.721)

8. Wei Chen*, Hao Lin*. (2010) Prediction of midbody, centrosome and kinetochore proteins based on gene ontology information. Biochemical and Biophysical Research Communications, 401(3): 382-384. (2010 IF: 2.595)


7. Hui Ding, Liaofu Luo*, Hao Lin. (2009) Prediction of cell wall lytic enzymes using Chou's amphiphilic pseudo amino acid composition. Protein & Peptide Letters, 16(4): 351-355. (2009 IF: 1.755) (ESI)

6. Hao Lin*, Hao Wang, Hui Ding, Ying-Li Chen, Qian-Zhong Li. (2009) Prediction of subcellular localization of apoptosis protein using Chou's pseudo amino acid composition. Acta Biotheoretica, 57(3): 321-330. (2009 IF: 1.394)

5. Hui Ding*, Liaofu Luo. (2009) Kinetic model of the lysogeny/lysis switch of phage λ. Chinese Physics Letter, 26(9): 098701. (2009 IF: 0.972)


4. Hao Lin*, Hui Ding*, Feng-Biao Guo, An-Ying Zhang, Jian Huang. (2008) Predicting subcellular localization of mycobacterial proteins by using Chou's pseudo amino acid composition. Protein & Peptide Letters, 15(7): 739-744. (2008 IF: 1.281) (ESI)

3. Hao Lin*. (2008) The modified Mahalanobis Discriminant for predicting outer membrane proteins by using chou's pseudo amino acid composition. Journal of Theoretical Biology, 252(2): 350-356. (2008 IF: 2.454) (ESI)


2. Hao Lin, Qian-Zhong Li*. (2007) Using pseudo amino acid composition to predict protein structural class: approached by incorporating 400 dipeptide components. Journal of Computational Chemistry, 28(9): 1463-1466. (2006 IF: 4.893)

1. Hao Lin, Qian-Zhong Li*. (2007) Predicting conotoxin superfamily and family by using pseudo amino acid composition and modified Mahalanobis discriminant. Biochemical and Biophysical Research Communications, 354(2): 548-551. (2005 IF: 3.0)


As co-author:


27. Jun Wang, Pu-Feng Du*, Xin-Yu Xue, Guang-Ping Li, Yuan-Ke Zhou, Wei Zhao, Hao Lin, Wei Chen*. (2019) VisFeature: a stand-alone program for visualizing and analyzing statistical features of biological sequences. Bioinformatics, accepted. (2018 IF: 4.531)

26. Zhibin Lv, Shunshan Jin, Ziwei Wang, Hui Ding, Quan Zou*. (2019) A random forest sub-Golgi protein classifier optimized via dipeptide and amino acid composition features. Frontiers in Bioengineering and Biotechnology, 7: 215. (2018 IF: 5.122)

25. Yang Zhang, Tianyuan Liu, Liqun Chen, Jinxurong Yang, Jiayi Yin, Hao Xu, Zhixi Yun, Lin Ning, Fengbiao Guo, Yongshuai Jiang, Hao Lin, Yan Huang*, Dong Wang*, Jian Huang*. (2019) RIscoper: a tool for RNA-RNA interaction extraction from literatures. Bioinformatics, doi: 10.1093/bioinformatics/btz044. (2017 IF: 5.481)

24. Pengmian Feng*, Zhaochun Xu, Hui Yang, Hao Lv, Hui Ding, Li Liu*. (2019) Identification of D-modification sites by integrating heterogeneous features in Saccharomyces cerevisiae. Molecules, 24(3): 380. (2017 IF: 3.098)


23. Ning Li, Juanjuan Kang, Lixu Jiang, Bifang He, Hao Lin, Jian Huang*. (2017) PSBinder: A Web Service for Predicting Polystyrene Surface-Binding Peptides. BioMed Research International, 2017: 5761517. (2015 IF: 2.476).


22. Chuan Dong, Ya-Zhou Yuan, Fa-Zhan Zhang, Hong-Li Hua, Yuan-Nong Ye, Abraham Alemayehu Labena, Hao Lin, Wei Chen, Feng-Biao Guo*. (2016) Combining pseudo dinucleotide composition with the Z curve method to improve the accuracy of predicting DNA elements: a case study in recombination spots. Molecular BioSystems, 12(9): 2893-2900. (2015 IF: 2.829).

21. Bifang He, Guoshi Chai, Yaocong Duan, Zhiqiang Yan, Liuyang Qiu, Huixiong Zhang, Zechun Liu, Qiang He, Ke Han, Beibei Ru, Feng-Biao Guo, Hui Ding, Hao Lin, Xianlong Wang, Nini Rao, Peng Zhou, Jian Huang*. (2016) BDB: biopanning data bank. Nucleic Acids Research, 44: D1127-D1132. (2014 IF: 9.112).


20. Wei Chen*, Hong Tran, Zhiyong Liang, Hao Lin, and Liqing Zhang*. (2015) Identification and analysis of the N6-methyladenosine in the Saccharomyces cerevisiae transcriptome. Scientific Reports, 5: 13859. (2014 IF: 5.578).

19. Qiang Tang, Fulei Nie, Hui Ding, Peng Zhou, Jian Huang*. (2015) NIEluter: Predicting peptides eluted from HLA class I molecules. Journal of Immunological Methods, 422: 22-27. (2013 IF: 2.005).

18. Xiong Wang, Hao Lin, Yu Zheng, Juan Feng, Zujun Yang, Lixia Tang*. (2015) MDC-Analyzer-facilitated combinatorial strategy for improving the activity and stability of halohydrin dehalogenase from Agrobacterium radiobacter AD1. Journal of Biotechnology, 206: 1-7. (2013 IF: 2.884).

17. Wei Chen*, Xitong Zhang, Jordan Brooker, Hao Lin, Liqing Zhang*, Kuo-Chen Chou*. (2015) PseKNC-General: A cross-platform package for generating various modes of pseudo nucleotide compositions. Bioinformatics, 31(1): 119-120. (2013 IF: 4.621). (ESI)


16. Ziqiang Li, Mingtian Zhou, Hao Lin, Haibo Pu. (2014) A two stages sparse SVM training. International Journal of Machine Learning and Cybernetics, 5(3): 425-434. (2016 IF: 1.699)

15. Boyu Li, Nini Rao*, Dingyu Liu, Yang Yang, Dingyun Liu, Hanming Liu, Tao Gan, Hui Ding, Hao Lin. (2014) Analysis of connection networks among miRNAs differentially expressed in early gastric cancer for disclosing some biological features of disease development. Gene, 548(2): 159-165. (2012 IF: 2.196)

14. Lv-Wen Ning, Hao Lin, Hui Ding, Jian Huang, Nini Rao, Feng-Biao Guo. (2014) Predicting bacterial essential genes using only sequence composition information. Genetics and Molecular Research, 13(2): 4564-4572. (2012 IF: 0.994)

13. Yonge Feng*, Hao Lin, Liaofu Luo. (2014) Prediction of protein secondary structure using feature selection and analysis approach. Acta Biotheoretica, 62(1): 1-14. (2013 IF: 1.231)

12. Ziqiang Li*, Mingtian Zhou, Lijia Xu, Hao Lin, Haibo Pu.(2014) Training sparse SVM on the core sets of fitting-planes. Neurocomputing, 130: 20-27. (2012 IF: 1.634)

11. Beibei Ru, Peter A.C.'T Hoen, Fulei Nie, Hao Lin, Feng-Biao Guo, Jian Huang*. (2014) Phd7faster: predicting clones propagating faster from the PH.D.-7 phage display peptide library. Journal of Bioinformatics and Computational Biology, 12(1):1450005. (2013 IF: 0.931)


10. Li Liu, Qian-Zhong Li*, Hao Lin, Yong-Chun Zuo. (2013) The effect of regions flanking target site on siRNA potency. Genomics, 102(4): 215-222. (2012 IF: 3.01)


9. Feng-Biao Guo*, Wen Wei, Xian-Long Wang, Hao Lin, Hui Ding, Jian Huang, Nini Rao. (2012) Co-evolution of genomic islands and their bacterial hosts revealed through phylogenetic analyses of 17 groups of homologous genomic islands. Genetics and Molecular Research, 11(4): 3735-3743. (2012 IF: 0.994)

8. Jian Huang*, Beibei Ru, Ping Zhu, Fulei Nie, Jun Yang, Xuyang Wang, Ping Dai, Hao Lin, Feng-biao Guo, Nini Rao. (2012) MimoDB 2.0: a mimotope database and beyond. Nucleic Acids Research, 40(Database issue): D271-D277. (2012 IF: 8.278)


7. Feng-Biao Guo*, Lu-Wen Ning, Jian Huang, Hao Lin, Hui-Xiong Zhang. (2010) Chromosome translocation and its consequence in the genome of Burkholderia cenocepacia AU-1054. Biochemical and Biophysical Research Communications, 403(3-4): 375-379. (2010 IF: 2.595)

6. Jian Huang*, Beibei Ru, Shiyong Li, Hao Lin, Feng-Biao Guo. (2010) SAROTUP: Scanner and reporter of target-unrelated peptides. Journal of Biomedicine and Biotechnology, 2010: 101932. (2010 IF: 1.225)

5. Beibei Ru, Jian Huang*, Ping Dai, Shiyong Li, Zhongkui Xia, Hui Ding, Hao Lin, Feng-Biao Guo, Xianlong Wang. (2010) MimoDB: a new repository for mimotope data derived from phage display technology. Molecules, 15(11): 8279-8288. (2010 IF: 1.988)


4. Feng-Biao Guo*, Hao Lin, Jian Huang. (2009) A plot of G+C content against sequence length of 640 bacterial chromosomes shows the points are widely scattered in the upper triangular area. Chromosome Research, 17(3): 359-364. (2009 IF: 3.23)


3. Qian-Zhong Li*, Hao Lin. (2006) The recognition and prediction of sigma(70) promoters in Escherichia coli K-12. Journal of Theoretical Biology, 242(1): 135-141. (2006 IF: 2.264)

2. Liaofu Luo*, Joseph Molnar, Hui Ding, Xiaogui Lv, Gabriella Spengler. (2006) Physicochemical attack against solid tumors based on the reversal of direction of entropy flow: an attempt to introduce thermodynamics in anticancer therapy. Diagnostic Pathology,1: 43. (2009 IF: 1.29)

1. Liaofu Luo*, Joseph Molnar, Hui Ding, Xiaogui Lv, Gabrilla Splengler. (2006) Ultrasound absorption and entropy production in biological tissue: a novel approach to anticancer therapy. Diagnostic Pathology, 1: 35. (2009 IF: 1.29)