[1] | Macarulla T, Ramos FJ, Tabernero J (2008) Aurora kinase family: a new target for anticancer drug. Recent Patents Anticancer Drugs Discov 3(2): 114–122. doi:10.2174/157489208784638785. PubMed: 18537754.
|
[2] | Fu J, Bian M, Jiang Q, Zhang C (2007)?Roles of aurora kinases in mitosis and tumorigenesis.?Mol Cancer Res?5: 1–10. doi:10.1158/1541-7786.MCR-06-0208. PubMed: 17259342.
|
[3] | Gautschi O, Heighway J, Mack PC, Purnell PR Jr., Gandara DR et al. (2008)?Aurora kinases as anticancer drug targets.?Clin Cancer Res?14: 1624–1633. PubMed: 18347165.
|
[4] | Nguyen HG, Chinnappan D, Urano T, Ravid K (2005) Mechanism of Aurora-B degradation and its dependency on intact KEN and A-boxes: identification of an aneuploidy-promoting property. Mol Cell Biol 25: 4977-4992. doi:10.1128/MCB.25.12.4977-4992.2005. PubMed: 15923616.
|
[5] | Castro A, Vigneron S, Bernis C, Labbé JC, Prigent C et al. (2002) The D-Boxactivating domain (DAD) is a new proteolysis signal that stimulates the silent DBox sequence of Aurora-A. EMBO Rep 3: 1209-1214. doi:10.1093/embo-reports/kvf241. PubMed: 12446569.
|
[6] | Castro A, Arlot-Bonnemains Y, Vigneron S, Labbé JC, Prigent C et al. (2002) APC/Fizzy-Related targets Aurora-A kinase for proteolysis. EMBO Rep 3: 457-462. doi:10.1093/embo-reports/kvf095. PubMed: 11964384.
|
[7] | Crane R, Kloepfer A, Ruderman JV (2004) Requirements for the destruction of human Aurora-A.J. J Cell Sci 117: 5975-5983. doi:10.1242/jcs.01418. PubMed: 15536123.
|
[8] | Eyers PA, Churchill ME, Maller JL (2005) The Aurora A and Aurora B protein kinases: a single amino acid difference controls intrinsic activity and activation by TPX2.?Cell Cycle.?4: 784–789. doi:10.4161/cc.4.6.1693. PubMed: 15908779.
|
[9] | Yan X, Cao L, Li Q, Wu Y, Zhang H et al. (2005)?Aurora C is directly associated with survivin and required for cytokinesis.?Genes Cells?10: 617–626. doi:10.1111/j.1365-2443.2005.00863.x. PubMed: 15938719.
|
[10] | Gabillard JC, Ulisse S, Baldini E, Sorrenti S, Cremet JY et al. (2011) Aurora-C interacts with and phosphorylates the transforming acidic coiled-coil 1 protein 408. Biochem Biophys Res Co. pp. 647-653.
|
[11] | Avo Santos M, van de Werken C, de Vries M, Jahr H, Vromans MJ, et al.?(2011)?A role for Aurora C in the chromosomal passenger complex during human preimplantation embryo development.?Hum Reprod?26:1868–1881. PubMed: 21531210.
|
[12] | Flicek P, Ahmed I, Amode MR, Barrell D, Beal K et al. (2013) Ensembl 2013. Nucleic Acids Res 41: D48-D55. doi:10.1093/nar/gks1236. PubMed: 23203987.
|
[13] | Strimmer K, von Haesler A (1996) Quartet puzzling: a quartet maximum likelihood method for reconstructing tree topologies. Mol Biol Evol 13: 964-969. doi:10.1093/oxfordjournals.molbev.a025664.
|
[14] | Swpfford DL (1999). PAUP *. Phylogenetic Analysis Using Parsimony (*and Other Methods). . Sunderland, MA: Sinauer Associates ; 1999.
|
[15] | Huelsenbeck JP, Ronquist F (2001) MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17: 754-755. doi:10.1093/bioinformatics/17.8.754. PubMed: 11524383.
|
[16] | Ronquist F, Huelsenbeck JP (2003) MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19: 1572-1574. doi:10.1093/bioinformatics/btg180. PubMed: 12912839.
|
[17] | Page RD (1996) TreeView: an application to display phylogenetic trees on personal computers. Comput Appl Biosci 12: 357-358. PubMed: 8902363.
|
[18] | Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22: 4673-4680. doi:10.1093/nar/22.22.4673. PubMed: 7984417.
|
[19] | Xia X, Lemey P (2009) Assessing substitution saturation with DAMBE. The Phylogenetic Handbook: A Practical Approach to DNA and Protein Phylogeny. New York: Kluwer Publishing House Academic Publishers. pp. 615–630.
|
[20] | Xia X (2013) DAMBE5: A Comprehensive Software Package for Data Analysis in Molecular Biology and Evolution. Mol Biol Evol 30(7): 1720–1728. doi:10.1093/molbev/mst064. PubMed: 23564938.
|
[21] | Sharp PM, Li WH (1987) The codon adaptation index—a measure of directional synonymous codon usage bias, and its potential applications. Nucleic Acids Res 15(3): 1281–1295. doi:10.1093/nar/15.3.1281. PubMed: 3547335.
|
[22] | Sharp PM, Li WH (1986) An evolutionary perspective on synonymous codon usage in unicellular organisms. J Mol Evol 24(1-2): 28–38. doi:10.1007/BF02099948. PubMed: 3104616.
|
[23] | Naya H, Romero H, Carels N, Zavala A, Musto H (2001) Translational selection shapes codon usage in the GC-rich genomes of?Chlamydomonas reinhardtii.?FEBS Lett. 501(2-3): 127–130. doi:10.1016/S0014-5793(01)02644-8. PubMed: 11470270.
|
[24] | Gupta SK, Bhattacharyya TK, Ghosh TC (2004) Synonymous codon usage in?Lactococcus lactis: mutational bias versus translational selection.?J Biomol Struct Dyn?21(4): 527–536. doi:10.1080/07391102.2004.10506946. PubMed: 14692797.
|
[25] | Yang Z (2007) PAML 4: phylogenetic analysis by maximum likelihood. Mol Biol Evol 24: 1586–1591. doi:10.1093/molbev/msm088. PubMed: 17483113.
|
[26] | Kosakovsky PSL, Frost SDW (2005) Datamonkey: rapid detection of selective pressure on individual sites of codon alignments. Bioinformatics 21: 2531–2533. doi:10.1093/bioinformatics/bti320. PubMed: 15713735.
|
[27] | Yang Z, Nielsen R, Goldman N, Pedersen AM (2000) Codon-substitution models for heterogenous selection pressure at amino acid sites. Genetics 155: 431–449. PubMed: 10790415.
|
[28] | Amigo J, Salas A, Phillips C, Carracedo A (2008) SPSmart: Adapting population based SNP genotype databases for fast and comprehensive web access. BMC Bioinformatics, 9: 428–433. doi:10.1186/1471-2105-9-428. PubMed: 18847484.
|
[29] | Bromberg Y, Rost B?(2007) SNAP: predict effect of non-synonymous polymorphisms on function.?Nucleic Acids Res, 35(11): 3823-3835. doi:10.1093/nar/gkm238. PubMed: 17526529.
|
[30] | Li B, Krishnan VG, Mort ME, Xin F, Kamati KK et al. (2009) Automated inference of molecular mechanisms of disease from amino acid substitutions. Bioinformatics, 25: 2744-2750. doi:10.1093/bioinformatics/btp528. PubMed: 19734154.
|
[31] | De Baets G, Van Durme J, Reumers J, Maurer-Stroh S, Vanhee P et al. (2012) SNPeffect 4.0: on-line prediction of molecular and structural effects of protein-coding variants. Nucleic Acids Res 40: D935–9 (Database issue): D935-. 9. PubMed: 22075996.
|
[32] | Kumar P, Henikoff S, Ng PC (2009) Predicting the effects of coding non-synonymous variants on protein function using the SIFT algorithm. Nat Protoc, 4: 1073-1081. doi:10.1038/nprot.2009.86. PubMed: 19561590.
|
[33] | Adzhubei IA, Schmidt S, Peshkin L, Ramensky VE, Gerasimova A et al. (2010) A method and server for predicting damaging missense mutations. Nat Methods 7: 248–249. doi:10.1038/nmeth0410-248. PubMed: 20354512.
|
[34] | Capriotti E, Fariselli P, Casadio R (2005) I-Mutant 2.0: Predicting stability changes upon Mutation from the protein sequence or structure. Nucleic Acids Res 33: 306–310. doi:10.1093/nar/gki375.
|
[35] | Brown JR, Koretke KK, Birkeland ML, Sanseau P, Patrick DR (2004) Evolutionary relationships of Aurora kinases: implications for model organism studies and the development of anti-cancer drugs. BMC Evol Biol, 4: 39. doi:10.1186/1471-2148-4-39. PubMed: 15476560.
|
[36] | Machado JP, Johnson WE, O’Brien SJ, Vasconcelos V, Antunes A (2011) Adaptive evolution of the matrix extracellular phosphoglycoprotein in mammals. BMC Evol Biol 11: 342. doi:10.1186/1471-2148-11-342. PubMed: 22103247.
|
[37] | Chen J, Sun Y (2011) Variation in the analysis of positively selected sites using nonsynonymous/synonymous rate ratios: an example using influenza virus. PLOS ONE. 6(5): e19996. doi:10.1371/journal.pone.0019996. PubMed: 21629696.
|
[38] | Wolf JB, Künstner A, Nam K, Jakobsson M, Ellegren H (2009) Nonlinear Dynamics of Nonsynonymous (dN) and Synonymous (dS) Substitution Rates Affects Inference of Selection. Genome Biol Evol 1: 308-319. PubMed: 20333200.
|
[39] | Bazykin GA, Kondrashov AS (2011) Detecting past positive selection through ongoing negative selection. Genome Biol Evol 3: 1006-1013. doi:10.1093/gbe/evr086. PubMed: 21859804.
|
[40] | Loewe L (2008) Negative selection. Nature. Education: 1.
|
[41] | Ewart-Toland A, Briassouli P, de Koning JP, Mao JH, Yuan J et al. (2003) Identification of Stk6/STK15 as a candidate low-penetrance tumor-susceptibility gene in mouse and human. Nat Genet, 34: 403–412. doi:10.1038/ng1220. PubMed: 12881723.
|
[42] | Bolanos-Garcia VM (2005) Aurora kinases. Int J Biochem Cell Biol, 37: 1572–1577. doi:10.1016/j.biocel.2005.02.021. PubMed: 15896667.
|