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266 CHAPTER 10 COMPUTATIONAL BIOLOGY APPROACH ON GENETIC
DISORDER

[36] M.J. Meaney, Epigenetics and the biological definition of gene environment interactions, Child Dev. 81 (1)
(2010) 41–79.
[37] C.S. Pareek, R. Smoczynski, A. Tretyn, Sequencing technologies and genome sequencing, J. Appl. Genet.
52 (4) (2011) 413–435.
[38] H.P.J. Buermans, J.T. Den Dunnen, Next generation sequencing technology: advances and applications, Bio-
chim. Biophys. Acta (BBA) - Mol. Basis Dis. 1842 (10) (2014) 1932–1941.
[39] S.R. Strickler, A. Bombarely, L.A. Mueller, Designing a transcriptome next-generation sequencing project
for a nonmodel plant species1, Am. J. Bot. 99 (2) (2012) 257–266.
[40] R.K. Varshney, S.N. Nayak, G.D. May, S.A. Jackson, Next-generation sequencing technologies and their
implications for crop genetics and breeding, Trends Biotechnol. 27 (9) (2009) 522–530.
[41] D.R. Zerbino, E. Birney, Velvet: algorithms for de novo short read assembly using de Bruijn graphs, Genome
Res. 18 (2008) 821–829.
[42] Luo, et al., SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler, Giga
Sci. 1 (2012) 18.
[43] E. Mohandas, V. Rajmohan, B. Raghunath, Neurobiology of Alzheimer’s disease, Indian J. Psychiatry 51 (1)
(2009) 55.
[44] D.W. Farley, S.L. Donaldson, O. Comes, K. Zuberi, R. Badrawi, P. Chao, M. Franz, C. Grouios, F. Kazi, C.
T. Lopes, A. Maitland, S. Mostafavi, J. Montojo, Q. Shao, G. Wright, G.D. Bader, Q. Morris, The GeneMA-
NIA prediction server: biological network integration for gene prioritization and predicting gene function,
Nucleic Acids Res. 38 (2010) 214–220.
[45] B. Snel, G. Lehmann, P. Bork, M.A. Huynen, STRING: a web-server to retrieve and display the repeatedly
occurring neighborhood of a gene, Nucleic Acids Res. 28 (18) (2000) 3442–3444.
[46] H.M. Berman, T. Battistuz, T.N. Bhat, W.F. Bluhm, P.E. Bourne, K. Burkhardt, Z. Feng, G.
L. Gilliland, L. Iype, S. Jain, P. Fagan, The Protein Data Bank, Acta Crystallogr., Sect. D: Biol. Crystallogr.
58 (6) (2002) 899–907.
[47] The UniProt Consortium, UniProt: the universal protein knowledgebase, Nucleic Acids Res. 45 (2017)
158–169.
[48] C. Knox, V. Law, T. Jewison, P. Liu, S. Ly, A. Frolkis, A. Pon, K. Banco, C. Mak, V. Neveu,
Y. Djoumbou, DrugBank 3.0: a comprehensive resource for ‘omics’ research on drugs, Nucleic Acids
Res. 39 (1) (2010) 1035–1041.
[49] R. Norel, S.L. Lin, H.J. Wolfson, R. Nussinov, Molecular surface complementarity at protein-protein inter-
faces: the critical role played by surface normals at well placed, sparse, points in docking, J. Mol. Biol. 252 (2)
(1995) 263–273.
[50] R.A. Friesner, J.L. Banks, R.B. Murphy, T.A. Halgren, J.J. Klicic, D.T. Mainz, M.P. Repasky, E.
H. Knoll, M. Shelley, J.K. Perry, D.E. Shaw, Glide: a new approach for rapid, accurate docking and scoring.
1. Method and assessment of docking accuracy, J. Med. Chem. 47 (7) (2004) 1739–1749.
[51] R. Dias, J. de Azevedo, F. Walter, Molecular docking algorithms, Curr. Drug Targets 9 (12) (2008)
1040–1047.
[52] R.D. Taylor, P.J. Jewsbury, J.W. Essex, A review of protein-small molecule docking methods, J. Comput.
Aided Mol. Res. 16 (3) (2002) 151–166.
[53] R.A. Friesner, R.B. Murphy, M.P. Repasky, L.L. Frye, J.R. Greenwood, T.A. Halgren, P.C. Sanschagrin, D.
T. Mainz, Extra precision glide: docking and scoring incorporating a model of hydrophobic enclosure for
protein-ligand complexes, J. Med. Chem. 49 (21) (2006) 6177–6196.
[54] S.K. Pattanayak, S. Snehasis, Pressure and temperature dependence on the hydrogen bonding and dynamics
of ammonium ion in liquid water: a molecular dynamics simulations study, J. Mol. Liq. 186 (2013) 98–105.
[55] S.K. Pattanayak, P. Chettiyankandy, S. Chowdhuri, Effects of co-solutes on the hydrogen bonding structure
and dynamics in aqueous N-methylacetamide solution: a molecular dynamics simulations study, Mol. Phys.
112 (22) (2014) 2906–2919.