Dr. Andrew M Lynn Research Group

1. Avni Sinha, K Eniyan, Swati Sinha, Andrew M Lynn, Urmi Bajpai. "Functional analysis of TPM domain containing Rv2345 of Mycobacterium tuberculosis identifies its phosphatase activity." Protein Expression and Purification 111 (2015): 23-27. 2. Abdul Qayum, R Arya, P Kumar, Andrew M Lynn. "Socio-economic, epidemiological and geographic features based on GIS-integrated mapping to identify malarial hotspots." Malaria Journal 14.1 (2015): 1-20. 3. Pankaj Narang, Shawez Khan, Anmol J Hemrom, OSDD, Andrew M Lynn. "MetaNET-a web-accessible interactive platform for biological metabolic network analysis." BMC Systems Biology 8.1 (2014): 130. 4. Singh, Shilpi, Urmi Bajpai, and Andrew Michael Lynn. "Structure based virtual screening to identify inhibitors against MurE Enzyme of Mycobacterium tuberculosis using AutoDock Vina." Bioinformation 10.11 (2014): 697. 5. Qayum, Abdul, Andrew Michael Lynn, and Rakesh Arya. "Traditional Knowledge System Based GIS Mapping of Antimalarial Plants: Spatial Distribution Analysis." Journal of Geographic Information System 6.05 (2014): 478. 6. Sinha, Swati; Lynn, Andrew Michael; HMM-ModE: implementation, benchmarking and validation with HMMER3. BMC research notes 7 (1), 483 7. Kumari, Rashmi, Rajendra Kumar, OSDD and Andrew Lynn. "g_mmpbsa A GROMACS Tool for High-Throughput MM-PBSA Calculations." Journal of Chemical Information and Modeling 54.7 (2014): 1951-1962. 8. Rawal MK, Khan MF, Kapoor K, Goyal N, Sen S, Saxena AK, Lynn AM, Tyndall JD, Monk BC, Cannon RD, Komath SS, Prasad R. (2103) Insight into pleiotropic drug resistance ATP-binding cassette pump drug transport through mutagenesis of Cdr1p transmembrane domains. J Biol Chem. 2013 Aug 23;288(34):24480-93. 9. Qayum, Abdul et al. "GIS Integrated Epidemiological Indices for Risk Area Identification towards Malaria Control Measures." International Journal of Engineering and Advanced Technology (IJEAT) 2 (2013): 376-381. 10. Maurya IK, Thota CK, Verma SD, Sharma J, Rawal MK, Ravikumar B, Sen S, Chauhan N, Lynn AM, Chauhan VS, Prasad R. (2013) Rationally designed transmembrane peptide mimics of the multidrug transporter protein Cdr1 act as antagonists to selectively block drug efflux and chemosensitize azole- resistant clinical isolates of Candida albicans. J Biol Chem. 2013 Jun 7;288(23):16775-87. 11. M Ajeet, K Antresh, S Ashutosh, ML Andrew, K Khyati, P Rajendra (2012). A key structural domain of the Candida albicans Mdr1 protein. Biochemical Journal 445 (3), 313-322 12. DA Gideon, R Kumari, AM Lynn, KM Manoj (2012). What is the Functional Role of N-terminal Transmembrane Helices in the Metabolism Mediated by Liver Microsomal Cytochrome P450 and its Reductase. Cell Biochemistry and Biophysics, 1-11. 13. Anshu Bhardwaj, Vinod Scaria, Gajendra Pal Singh Raghava, Andrew Michael Lynn,Nagasuma Chandra, Sulagna Banerjee, Muthukurussi V Raghunandanan,Vikas Pandey, Bhupesh Taneja (2011). Open source drug discovery-A new paradigm of collaborative research in tuberculosis drug development. Tuberculosis (Edinburgh, Scotland) 91: 479–486. doi:10.1016/j.tube.2011.06.004 14. DK Desai, S Nandi, PK Srivastava, AM Lynn (2011). Modenza: Accurate identification of metabolic enzymes using function specific profile hmms with optimised discrimination threshold and modified emission probabilities. Adv Bioinformatics:743782 15. A Rahi, M Rehan, R Garg, D Tripathi, AM Lynn, R Bhatnagar (2011). Enzymatic characterization of Catalase from Bacillus anthracis and prediction of critical residues using information theoretic measure of Relative Entropy. Biochem Biophys Res Commun 411:88-95. 16. R Kumari, AM Lynn (2011). Application of MM/PBSA in the prediction of relative binding free energy: Re-scoring of docking hit-list. J Nat Sc Biol Med ;2:92. 17. M Rehan, AM Lynn (2011). Prediction and classification of critical residues into fold and function using an information theoretic method. J Nat Sc Biol Med;2:47-8. 18. S Ahmad, M Hassan, AM Lynn (2011). STAT6: An overview to its homology modeling. J Nat Sc Biol Med 2011;2:59. 19. K Kapoor, M Rehan, AM Lynn, R Prasad (2010). Employing Information Theoretic Measures and Mutagenesis to Identify Residues Critical for Drug-Proton Antiport Function in Mdr1p of Candida albicans. PLoS ONE 5(6): e11041. doi:10.1371/journal.pone.0011041 20. K Kapoor, M Rehan, A Kaushiki, R Pasrija, AM Lynn, R Prasad (2009). Rational mutational analysis of a multidrug MFS transporter CaMdr1p of Candida albicans by employing a membrane environment based computational approach. PLoS Computational Biology 5 (12), e1000624. 21. RD Sharma, AM Lynn, PK Sharma (2009). High temperature unfolding of Bacillus anthracis amidase-03 by molecular dynamics simulations. Bioinformation 3 (10), 430 22. RD Sharma, N Goswami, AM Lynn. A modeled structure for amidase-03 from Bacillus anthracis. Bioinformation 4 (6), 242 23. Pradip Bhattacharya, Tamil Ganeshan, Soumyadeep Nandi, Alok Srivastava, Prashant Singh, Mohommad Rehan, Reshmi Rashkush, Naidu Subbarao, Andrew Lynn (2009). Journal of Molecular Modeling 15 (9), 1013-1025. 24. CJ Bonhomme, P Renesto, S Nandi, AM Lynn, D Raoult (2008). Serological microarray for a paradoxical diagnostic of Whipple’s disease. European Journal of Clinical Microbiology & Infectious Diseases 27 (10), 959-968 25. P Srivastava, D Desai, S Nandi, A Lynn (2007). HMM-ModE–Improved classification using profile hidden Markov models by optimising the discrimination threshold and modifying emission probabilities with negative training sequences. BMC Bioinformatics 8 (1), 104 26. A Pareek, A Singh, M Kumar, HR Kushwaha, AM Lynn, SL Singla-Pareek (2006). Whole-genome analysis of Oryza sativa reveals similar architecture of two- component signaling machinery with Arabidopsis. Plant Physiology 142 (2), 380 27. S Nandi, N Mehra, A Lynn, A Bhattacharya (2005). Comparison of theoretical proteomes: Identification of COGs with conserved and variable pI within the multimodal pI distribution. BMC Genomics 6 (1), 116 28. R Deswal, R Singh, AM Lynn, R Frank (2005). Identification of immunodominant regions of Brassica juncea glyoxalase I as potential antitumor immunomodulation targets. Peptides 26 (3), 395-404 29. S Jha, N Karnani, AM Lynn, R Prasad (2003). Covalent modification of cysteine 193 impairs ATPase function of nucleotide-binding domain of a Candida drug efflux pump. Biochemical and Biophysical Research Communications 310 (3), 869-875 30. KC Pandey, S Singh, P Pattnaik, CR Pillai, U Pillai, A Lynn, SK Jain, CE Chitnis (2002). Bacterially expressed and refolded receptor binding domain of Plasmodium falciparum EBA-175 elicits invasion inhibitory antibodies. Molecular and Biochemical Parasitology 123 (1), 23-33 31. Singh, S., K. Pandey, R. Chattopadhayay, S. S. Yazdani, A. Lynn, A. Bharadwaj, A. Ranjan, and C. Chitnis (2001).Biochemical, biophysical, and functional characterization of bacterially expressed and refolded receptor binding domain of Plasmodium vivax duffy-binding protein. J. Biol. Chem. 276:17111-17116. 32. RC Grace, AM Lynn, SM Cowsik (2001). Lipid induced conformation of the tachykinin peptide Kassinin. Journal of biomolecular structure & dynamics 18 (4), 611 33. AM Lynn, CK Jain, K Kosalai, P Barman, N Thakur, H Batra, A Bhattacharya (2001). An automated annotation tool for genomic DNA sequences using GeneScan and BLAST. Journal of Genetics 80 (1), 9-16 34. S Mukhopadhyay, SM Cowsik, AM Lynn, WJ Welsh, AC Howlett. (1999). Regulation of Gi by the CB1 cannabinoid receptor C-terminal juxtamembrane region:structural requirements determined by peptide analysis. Biochemistry 38 (11), 3447-3455. 35. A Lynn, S Chandra, P Malhotra, VS Chauhan (1999). Heme binding and polymerization by Plasmodium falciparum histidine rich protein II: influence of pH on activity and conformation. FEBS letters 459 (2), 267-271

Prof. Andrew M. Lynn Research Group