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“Expression and distribution of SP and its NK1 receptor in the brain-gut axis in neonatal maternally separated rat model with visceral hypersensitivity”, vol. 15, p. -, 2016.
, “Expression and distribution of SP and its NK1 receptor in the brain-gut axis in neonatal maternally separated rat model with visceral hypersensitivity”, vol. 15, p. -, 2016.
, “Genetic variability of XRCC1 influences the treatment outcome of gastric cancer”, vol. 15, p. -, 2016.
, “Genetic variability of XRCC1 influences the treatment outcome of gastric cancer”, vol. 15, p. -, 2016.
, “Cohn process influences the functional anticoagulant activity of human protein C”, vol. 14, pp. 860-870, 2015.
, , “Patterns of synonymous codon usage bias in the model grass Brachypodium distachyon”, vol. 11, pp. 4695-4706, 2012.
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Bulmer M (1991). The selection-mutation-drift theory of synonymous codon usage. Genetics 129: 897-907.
PMid:1752426 PMCid:1204756
Carels N and Bernardi G (2000). Two classes of genes in plants. Genetics 154: 1819-1825.
PMid:10747072 PMCid:1461008
Chiapello H, Lisacek F, Caboche M and Henaut A (1998). Codon usage and gene function are related in sequences of Arabidopsis thaliana. Gene 209: GC1-GC38.
http://dx.doi.org/10.1016/S0378-1119(97)00671-9
De Amicis F and Marchetti S (2000). Intercodon dinucleotides affect codon choice in plant genes. Nucleic Acids Res. 28: 3339-3345.
http://dx.doi.org/10.1093/nar/28.17.3339
PMid:10954603 PMCid:110687
Doust A (2007). Architectural evolution and its implications for domestication in grasses. Ann. Bot. 100: 941-950.
http://dx.doi.org/10.1093/aob/mcm040
PMid:17478546 PMCid:2759198
Draper J, Mur LA, Jenkins G, Ghosh-Biswas GC, et al. (2001). Brachypodium distachyon. A new model system for functional genomics in grasses. Plant Physiol. 127: 1539-1555.
http://dx.doi.org/10.1104/pp.010196
PMid:11743099 PMCid:133562
Duret L and Mouchiroud D (1999). Expression pattern and, surprisingly, gene length shape codon usage in Caenorhabditis, Drosophila, and Arabidopsis. Proc. Natl. Acad. Sci. U. S. A. 96: 4482-4487.
http://dx.doi.org/10.1073/pnas.96.8.4482
PMid:10200288 PMCid:16358
Eyre-Walker AC (1991). An analysis of codon usage in mammals: selection or mutation bias? J. Mol. Evol. 33: 442-449.
http://dx.doi.org/10.1007/BF02103136
PMid:1960741
Gupta SK, Bhattacharyya TK and Ghosh TC (2004). Synonymous codon usage in Lactococcus lactis: mutational bias versus translational selection. J. Biomol. Struct. Dyn. 21: 527-536.
http://dx.doi.org/10.1080/07391102.2004.10506946
PMid:14692797
Hershberg R and Petrov DA (2008). Selection on codon bias. Annu. Rev. Genet. 42: 287-299.
http://dx.doi.org/10.1146/annurev.genet.42.110807.091442
PMid:18983258
International Brachypodium Initiative (2010). Genome sequencing and analysis of the model grass Brachypodium distachyon. Nature 463: 763-768.
http://dx.doi.org/10.1038/nature08747
PMid:20148030
Jiang Y, Deng F, Wang H and Hu Z (2008). An extensive analysis on the global codon usage pattern of baculoviruses. Arch. Virol. 153: 2273-2282.
http://dx.doi.org/10.1007/s00705-008-0260-1
PMid:19030954
Kawabe A and Miyashita NT (2003). Patterns of codon usage bias in three dicot and four monocot plant species. Genes Genet. Syst. 78: 343-352.
http://dx.doi.org/10.1266/ggs.78.343
PMid:14676425
Liu H, He R, Zhang H, Huang Y, et al. (2010). Analysis of synonymous codon usage in Zea mays. Mol. Biol. Rep. 37: 677-684.
http://dx.doi.org/10.1007/s11033-009-9521-7
PMid:19330534
Liu Q (2006). Analysis of codon usage pattern in the radioresistant bacterium Deinococcus radiodurans. Biosystems 85: 99-106.
http://dx.doi.org/10.1016/j.biosystems.2005.12.003
PMid:16431014
Liu Q and Xue Q (2005). Comparative studies on codon usage pattern of chloroplasts and their host nuclear genes in four plant species. J. Genet. 84: 55-62.
http://dx.doi.org/10.1007/BF02715890
PMid:15876584
Liu Q, Feng Y, Zhao X, Dong H, et al. (2004). Synonymous codon usage bias in Oryza sativa. Plant Sci. 167: 101-105.
http://dx.doi.org/10.1016/j.plantsci.2004.03.003
Liu Q, Dou S, Ji Z and Xue Q (2005). Synonymous codon usage and gene function are strongly related in Oryza sativa. Biosystems 80: 123-131.
http://dx.doi.org/10.1016/j.biosystems.2004.10.008
PMid:15823411
Mitreva M, Wendl MC, Martin J, Wylie T, et al. (2006). Codon usage patterns in Nematoda: analysis based on over 25 million codons in thirty-two species. Genome Biol. 7: R75.
http://dx.doi.org/10.1186/gb-2006-7-8-r75
PMCid:1779591
Morton BR and Wright SI (2007). Selective constraints on codon usage of nuclear genes from Arabidopsis thaliana. Mol. Biol. Evol. 24: 122-129.
http://dx.doi.org/10.1093/molbev/msl139
PMid:17021276
Mukhopadhyay P, Basak S and Ghosh TC (2007a). Synonymous codon usage in different protein secondary structural classes of human genes: implication for increased non-randomness of GC3 rich genes towards protein stability. J. Biosci. 32: 947-963.
http://dx.doi.org/10.1007/s12038-007-0095-z
PMid:17914237
Mukhopadhyay P, Basak S and Ghosh TC (2007b). Nature of selective constraints on synonymous codon usage of rice differs in GC-poor and GC-rich genes. Gene 400: 71-81.
http://dx.doi.org/10.1016/j.gene.2007.05.027
PMid:17629420
Murray EE, Lotzer J and Eberle M (1989). Codon usage in plant genes. Nucleic Acids Res. 17: 477-498.
http://dx.doi.org/10.1093/nar/17.2.477
PMid:2644621 PMCid:331598
Naya H, Romero H, Carels N, Zavala A, et al. (2001). Translational selection shapes codon usage in the GC-rich genome of Chlamydomonas reinhardtii. FEBS Lett. 501: 127-130.
http://dx.doi.org/10.1016/S0014-5793(01)02644-8
Peraldi A, Beccari G, Steed A and Nicholson P (2011). Brachypodium distachyon: a new pathosystem to study Fusarium head blight and other Fusarium diseases of wheat. BMC Plant Biol. 11: 100.
http://dx.doi.org/10.1186/1471-2229-11-100
PMid:21639892 PMCid:3123626
Roychoudhury S and Mukherjee D (2010). A detailed comparative analysis on the overall codon usage pattern in herpesviruses. Virus Res. 148: 31-43.
http://dx.doi.org/10.1016/j.virusres.2009.11.018
PMid:19969032
Sharp PM and Li WH (1987). The codon Adaptation Index - a measure of directional synonymous codon usage bias, and its potential applications. Nucleic Acids Res. 15: 1281-1295.
http://dx.doi.org/10.1093/nar/15.3.1281
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Sharp PM, Stenico M, Peden JF and Lloyd AT (1993). Codon usage: mutational bias, translational selection, or both? Biochem. Soc. Trans. 21: 835-841.
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Shields DC and Sharp PM (1987). Synonymous codon usage in Bacillus subtilis reflects both translational selection and mutational biases. Nucleic Acids Res. 15: 8023-8040.
http://dx.doi.org/10.1093/nar/15.19.8023
PMid:3118331 PMCid:306324
Shields DC, Sharp PM, Higgins DG and Wright F (1988). "Silent" sites in Drosophila genes are not neutral: evidence of selection among synonymous codons. Mol. Biol. Evol. 5: 704-716.
PMid:3146682
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http://dx.doi.org/10.1093/nar/22.13.2437
PMid:8041603 PMCid:308193
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http://dx.doi.org/10.1073/pnas.85.8.2653
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Sueoka N and Kawanishi Y (2000). DNA G+C content of the third codon position and codon usage biases of human genes. Gene 261: 53-62.
http://dx.doi.org/10.1016/S0378-1119(00)00480-7
Wang HC and Hickey DA (2007). Rapid divergence of codon usage patterns within the rice genome. BMC Evol. Biol. 7: S6.
http://dx.doi.org/10.1186/1471-2148-7-S1-S6
PMid:17288579 PMCid:1796615
Wright F (1990). The 'effective number of codons' used in a gene. Gene 87: 23-29.
http://dx.doi.org/10.1016/0378-1119(90)90491-9
Zhang WJ, Zhou J, Li ZF, Wang L, et al. (2007). Comparative analysis of codon usage patterns among mitochondrion, chloroplast and nuclear genes in Triticum aestivum L. J. Integr. Plant Biol. 49: 246-254.
http://dx.doi.org/10.1111/j.1744-7909.2007.00404.x
Zhao S, Zhang Q, Chen Z, Zhao Y, et al. (2007). The factors shaping synonymous codon usage in the genome of Burkholderia mallei. J. Genet. Genomics 34: 362-372.
http://dx.doi.org/10.1016/S1673-8527(07)60039-3