As first author or corresponding author

  1. He B, Chai G, DuanY, YanZ, Qiu L, Zhang H, Liu Z, He Q, Han Ke, Ru B, Guo FB, Ding H, Lin H, Wang X, Rao N, Zhou P, Huang J. BDB: Biopanning Data Bank. Nucleic Acids Research 2016; 44(D1): D1127-D1132.
  2. Tang Q, Nie F, Kang J, Ding H, Zhou P Huang J. NIEluter: Predicting peptides eluted from HLA class I molecules. Journal of Immunological Methods 2015,422:22-27.
  3. Huang J, He B, Zhou P. Mimotope-based prediction of B-cell epitopes. Methods in Molecular Biology. 2014; 1184: 237-243.
  4. Yang C, Wang C, Zhang S, Huang J, Zhou P. Structural and energetic insights into the intermolecular interaction among human leukocyte antigens, clinical hypersensitive drugs and antigenic peptides. Molecular simulation, 2014; 41(9): 741-751.
  5. Ru B, 't Hoen PAC, Nie F, Lin H, Guo FB, Huang J. PhD7Faster: Predicting clones propagating faster from the Ph.D.-7 phage display peptide library. Journal of Bioinformatics and Computational Biology 2014; 12(1): 1450004.
  6. Huang J, Derda R, Huang Y. Phage Display Informatics. Computational and Mathematical Methods in Medicine 2013; 2013: 698395.
  7. He B, Mao C, Ru B, Han H, Zhou P, Huang J. Epitope Mapping of Metuximab on CD147 Using Phage Display and Molecular Docking. Computational and Mathematical Methods in Medicine 2013; 2013: 983829.
  8. Wu Z, Zhou P, Li X, Wang H, Luo D, Qiao H, Ke X, Huang J. Structural Characterization of a Recombinant Fusion Protein by Instrumental Analysis and Molecular Modeling. PLoS ONE 2013; 8(3): e57642.
  9. Zhou P, Wang C, Tian F, Ren Y, Yang C, Huang J. Biomacromolecular quantitative structure-activity relationship (BioQSAR): a proof-of-concept study on the modeling, prediction and interpretation of protein-protein binding affinity. J Comput Aided Mol Des 2013; 27(1): 67-78
  10. Huang J, Ru B, Zhu P, Nie F, Yang J, Wang X, Dai P, Lin H, Guo FB, Rao N. MimoDB 2.0: a mimotope database and beyond. Nucleic Acids Research 2012; 40(1): D271-D277.
  11. Huang J, Ru B, Dai P. Prediction of protein interaction sites using mimotope analysis. In: Protein-Protein Interactions -- Computational and Experimental Tools. Edited by Cai W and Hong H. InTech; 2012: 189-206.
  12. Huang J, Ru B, Dai P. Bioinformatics resources and tools for phage display. Molecules 2011; 16(1): 694-709.
  13. Ru B, Huang J, Dai P, Li S, Xia Z, Ding H, Lin H, Guo FB, Wang X. MimoDB: a New Repository for Mimotope Data Derived from Phage Display Technology. Molecules 2010; 15(11): 8279-8288.
  14. Huang J, Ru B, Li S, Lin H, Guo F. SAROTUP: Scanner And Reporter Of Target-Unrelated Peptides. Journal of Biomedicine and Biotechnology, 2010; 2010: 101932.
  15. Huang J, Xia M, Lin H, Guo F. Information loss and noise inclusion risk in mimotope based epitope mapping. The 3rd International Conference on Bioinformatics and Biomedical Engineering(iCBBE2009), 2009: 1-3.
  16. Huang J, You Z. Differential performance between structural and functional B-cell epitopic residue prediction. The 2nd International Conference on Bioinformatics and Biomedical Engineering (iCBBE2008), 2008: 93-96.
  17. Huang J, Honda W, Kanehisa M. Predicting B cell epitope residues with network topology based amino acid indices. Genome Informatics, 2007; 19: 40-49.
  18. Huang J, Kawashima S, Kanehisa M. New amino acid indices based on residue network topology. Genome Informatics, 2007; 18: 152-161.
  19. Huang J, Gutteridge A, Honda W, Kanehisa M. MIMOX: a web tool for phage display based epitope mapping. BMC Bioinformatics, 2006; 7: 451.
  20. Huang J, Honda W. CED: a conformational epitope database. BMC Immunol, 2006; 7: 7.
  21. Huang J, Cai MY, Wei DP. HLA class I expression in primary hepatocellular carcinoma. World J Gastroenterol, 2002; 8(4): 654-657.

As co-author

  1. Wu D, Huang Y, Kang J, Li K, Bi X, Zhang T, Jin N, Hu Yong, Tan P, Zhang L, Yi Y, Shen W, Huang J, Li XB, Li X, Xu J, Wang Dong. ncRDeathDB: a comprehensive bioinformatics resource for deciphering network organization of the ncRNA-mediated cell death system. Autophagy, 2015: in press.
  2. Yang C, Zhang S, He P, Wang C, Huang J Zhou P. Self-binding peptides: folding or binding? J Chem Inf Model, 2015; 55(2): 329-342.
  3. Ding H, Lin H, Chen W, Li ZQ, Guo FB, Huang J, Rao N. Prediction of protein structural classes based on feature selection technique. Interdiscip Sci, 2014; 6(3): 235-240.
  4. Li Y, Rao N, Yang F, Zhang Y, Yang Y, Liu HM, Guo F, Huang J. Biocomputional construction of a gene network under acid stress in Synechocystis sp. PCC 6803. Res Microbiol, 2014; 165(6): 420-428.
  5. Ning LW, Lin H, Ding H, Huang J, Rao N, Guo FB. Predicting bacterial essential genes using only sequence composition information. Genet Mol Res, 2014; 13(2): 4564-4572.
  6. Wei W, Ning LW, Ye YN, Li SJ, Zhou HQ, Huang J, Guo FB. SMAL: A resource of spontaneous mutation accumulation lines. Mol Biol Evol 2014; 31(5): 1302-1308.
  7. Tang L, Wang X, Ru B, Sun H, Huang J, Gao H. MDC-Analyzer: a novel degenerate primer design tool for the construction of intelligent mutagenesis libraries with contiguous sites. Biotechniques, 2014; 56(6): 301-308.
  8. Ye YN, Hua ZG, Huang J, Rao N, Guo FB. CEG: a database of essential gene clusters. BMC Genomics 2013; 14: 769.
  9. Lin H, Ding C, Yuan LF, Chen W, Ding H, Li ZQ, Guo FB, Huang J, Rao N. 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 2013; 13(6): 1350003.
  10. Guo FB, Wei W, Wang XL, Lin H, Ding H, Huang J, Rao N. Co-evolution of genomic islands and their bacterial hosts revealed through phylogenetic analyses of 17 groups of homologous genomic islands. Genet Mol Res, 2012; 11(4): 3735-3743.
  11. Shen X, He Z, Li H, Yao C, Zhang Y, He L, Li S, Huang J, Guo Z. Distinct functional patterns of gene promoter hypomethylation and hypermethylation in cancer genomes. PLoS ONE, 2012; 7(9): e44822.
  12. Zhou P, Huang J, Tian F. Specific Noncovalent Interactions at Protein-Ligand Interface: Implications for Rational Drug Design. Current Medicinal Chemistry, 2012; 19(2): 226-238.
  13. Ding H, Liu L, Guo FB, Huang J, Lin H. Identify Golgi Protein Types with Modified Mahalanobis discriminant Algorithm and Pseudo Amino Acid Composition. Protein Pept Lett, 2011; 18: 58-63.
  14. Guo FB, Ning LW, Huang J, Lin H, Zhang HX. Chromosome translocation and its consequence in the genome of Burkholderia cenocepacia AU-1054. Biochem Biophys Res Commun, 2010; 403(3-4): 375-379.
  15. Lin H, Ding H, Guo FB, Huang J. Prediction of subcellular location of mycobacterial protein using feature selection techniques. Molecular Diversity, 2010; 14(4): 667-671.
  16. You ZL, Xia Q, Liang FR, Tang YJ, Xu CL, Huang J, Zhao L, Zhang WZ, He JJ. Effects on the expression of GABAA receptor subunits by jujuboside A treatment in rat hippocampal neurons. J Ethnopharmacol, 2010; 128(2): 419-423.
  17. Guo FB, Lin H, Huang J. 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 Res, 2009; 17(3): 359-364.
  18. Lin H, Ding H, Guo FB, Zhang AY, Huang J. Predicting subcellular localization of mycobacterial proteins by using Chou's pseudo amino acid composition. Protein Pept Lett, 2008; 15(7): 739-744.