Publications of Jeyakumar Natarajan

Book Chapters

  1. Bremner,E.G., Natarajan, J., Zhang,Y., DeSesa,C., Hack,C.J. and Dubitzky,W., Text mining of full text articles and creation of a knowledge base for analysis of microarray data LNAI 3303: Knowledge Exploration in Life Science Informatics, 84-95, (2004)
  2. Natarajan, J., Mulay, N, DeSesa, C, et al., A grid infrastructure for text mining of full text articles and creation of a knowledge base of gene relations LNCS 3745: Biological and Medical Data Analysis, 101-108, (2005)
  3. Natarajan, J., Haines, C, Berglund, B, et al., GetItFull - A tool for downloading and pre-processing full-text journal articles LNCS 3886: Knowledge Discovery in Life Science Literature,139-145 (2006)
  4. Raja, K., Subramani, S., and Natarajan, J., Template Filling in Text Mining, Book Chapter in Encyclopedia of Systems Biology, Dubitzky, W., Wolkenhauer, O., Yokota, H., Cho, K.-H. (Eds.) (2013)

Peer Reviewed Journal Papers

  1. Natarajan J., Berrar D., Hack C.J., Dubitzky W., "Knowledge discovery in biology and biotechnology texts: A review of techniques, evaluation strategies, and applications", Critical Reviews in Biotechnology, Vol. 25, 31-52, (2005)
  2. Natarajan, J., Berrar D., Dubitzky W., Hack C. J, Zhang Y., Desesa C., Van Brocklyn J. R., Bremer E. G. "Text mining of full-text journal articles combined with gene expression analysis reveals a relationship between sphingosine-1-phosphate and invasiveness of a glioblastoma cell", BMC Bioinformatics, Aug 10;7(1):373, (2006)
  3. Natarajan, J. and Jawahar G., Functional gene clustering via gene annotation sentences, MeSH and GO keywords from biomedical literature, Bioinformation 2(5): 185-193 (2007)
  4. Vishalini K., Nicy Sweety I and Natarajan J., Computational identification of Alzheimer's disease specific transcription factors using microarray gene expression data, Journal of Proteomics and Bioinformatics 2: 505-508, (2009)
  5. Rajendran S. and Natarajan J., A Comparative study of differentially expressed gene selection programs for microarray data mining, The Internet Journal of Genomics and Proteomics, 5 (2) (2010)
  6. Anusuya1, S., and Natarajan, J., Differential genome analyses of metabolic enzymes in Mycobacterium leprae for drug target identification, Bioinformation, 4(9): 392-395 (2010)
  7. Ravichandran, S., and Natarajan J., Brain tumor biomarker identification via differential gene expression analysis of microarray data using CGAP, On line Journal of Bioinformatics, 11(1), 83-89, (2010)
  8. Gnanendra, T. S., Geethu, G., Arjunan, S., Sharmila, B., Zahir Hussain, M. I., Moorthy, K., and Natarajan J., Theoretical models of quorum sensing dependent regulation of transcriptional activators of pseudomonas aeruginosa, International Journal of Biological Technology, 1(3):43-49 (2010)
  9. Selvaraj, S., and Natarajan J., Microarray data analysis and mining tools, Bioinformation, 6(3): 392-395 (2011)
  10. Anusuya, S., and Natarajan, J, Comparative modeling of UDP-N-acetylmuramoyl-glycyl-D-glutamate-2, 6-diaminopimelate ligase from Mycobacterium leprae and analysis of its binding features through molecular docking studies, Journal of Molecular Modeling, 18(1):115-125 (2012)
  11. Anusuya, S., and Natarajan, J, Homology modeling and docking analyses of M. leprae Mur ligases reveals the common binding residues for structure based drug designing to eradicate leprosy, Journal of Molecular Modeling, 18(6): 2659-2672 (2012)
  12. Gnanendra S, Anusuya, S., and Natarajan, J, Molecular modeling and active site analysis of SdiA homolog, a putative quorum sensor for Salmonella typhimurium pathogenecity revels specific binding patterns of AHL transcriptional regulators, Journal of Molecular Modeling, 18(10):4709-4719 (2012)
  13. Anusuya, S., and Natarajan, J, Multi-Targeted Therapy for Leprosy: Insilico Strategy to Overcome Multi Drug Resistance and to Improve Therapeutic Efficacy, Infection, Genetics and Evolution 12(8):1899-910 (2012)
  14. Devaraj, S., and Natarajan, J., miRNA-mRNA network detects hub mRNAs and cancer specific miRNAs in lung cancer, In Silico Biol 11(5): 281-295 (2012)
  15. Balakrishnan, IK., Rangasamy, S, and Natarajan J., A Parkinson's disease mitochondrial dysfunction pathway with gene hubs, Online J Bioinform., 13(3):375-381 (2012)
  16. Anusuya, S., Anbazhagan, V., and Natarajan, J, Virtual screening studies of phenylsulfonamido-3-morpholinopropan-2-yldihydrogen phosphate derivatives as novel inhibitors of MurC-MurF ligases from Mycobacterium leprae, Med Chem Res, 21(12):4341-4351 (2012)
  17. Raja, K., Subramani, S., and Natarajan, J., PPInterFinder-a mining tool for extracting causal relations on human proteins from literature, Database, Vol.2013:bas052 (2013) (doi:10.1093/ database/bas052)
  18. Arighi, C. N., Carterette, B., ... Natarajan, J.,...Wu, C., An overview of the BioCreative 2012 Workshop Track III: interactive text mining task, Database, Vol.2013:bas056 (2013) (doi:10.1093/ database/bas056)
  19. Subramani, S., Jayapalan, S., Kalpana, R., and Natarajan, J., HomoKinase: A Curated Database of Human Protein Kinases, ISRN Comp. Biology, Vol. 2013, ID 417634, (2013) (doi: 10.1155/2013/417634)
  20. Gnanendra, S., Mohamed, S., and Natarajan, J, Identification of Potent Inhibitors for Salmonella Typhimurium Quorum Sensing via Virtual Screening and Pharmacophore Modeling, Comb. Che. & High Throughput Screen., Advance access published, (2013)
  21. Selvaraj, S., and Natarajan J., Expression-Based Network Biology Identifies High Score Sub-networks and Their Roles in Rett Syndrome, Int. Jr. of Pharma & Bio Sciences, In Press (2013)
  22. Anusuya, S., and Natarajan, J, The eradication of leprosy: molecular modeling techniques for novel drug discovery, Expert Opin. Drug Discov., (2013)
  23. Natarajan, J., Text Mining Perspectives in Microarray Data Mining, ISRN Comp. Biology, Volume 2013, Article ID 159135 (2013) (doi:10.1155/2013/159135)
  24. Subramani, S., Kalpana, R., and Natarajan, J., ProNormz - An integrated approach for human proteins and protein kinases normalization, Jr. of Biomedical Appl., 47, 131-138 (2013)
  25. Archana, P., and Natarajan, J., Prediction of miRNA in Human MHC that Encodes Different Immunological Function Using Support Vector Machines , Curr. Bioinfo., Vol 9, (2014)
  26. Raja, K., Subramani, S., and Natarajan, J., A hybrid named entity tagger for tagging human proteins/genes, Int. J. Data Mining and Bioinformatics, Vol 10, 3, 315-328 (2014)

Conferences Symposia Proceedings

  1. Kurup, K., and Natarajan J., Analysis of disordered regions in Protein kinase subfamilies of Homo sapiens and Coenorhabditis elegans, ACM Proceedings of International Symposium on Biocomputing, (ISB 2010), Calicut, Kerala, (2010) ( 1722024.1722028)
  2. Madhuvanthi, K., Selvaraj, S., and Natarajan J., Data mining in Microarray Data Analysis, Proceedings of Indo-US Workshop on Biocomputing, (ISB 2011), Calicut, India, 121-124 (2011)
  3. Natarajan J., Text searching and mining methods for biological data analysis, Proceedings of Nat. Conf. on Bioinfo. and Comp. Biology, Jodhpur, India 58-63 (2011)
  4. Kaplan, R, Suresh, S, Natarajan J, PPInterFinder - A Web Server for Mining Human Protein - Protein Interactions, Proc. of the BioCreative workshop, Georgetown University, Washington DC, April 8-9, (2012)
  5. Natarajan, J., and Dey, A., Text Mining Applications in Computational Biology, Proc. of the Nat. Conf. Comp. Biology, Bharathair University, Coimbatore, 65-71, (2013)
  6. Raja, K., Subramani, S., and Natarajan, J., A comparative study and performance evaluation of three named entity taggers for tagging human proteins and protein kinases names in biomedical text, Proc. of the Nat. Conf. Comp. Biology, Bharathair University, Coimbatore, 72-82, (2013)