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Comparable contributions of structural-functional constraints and expression level to the rate of protein sequence evolution
Maxim Y Wolf, Yuri I Wolf, Eugene V Koonin
Biol Direct. 2008; 3: 40. Published online 2008 October 7. doi: 10.1186/1745-6150-3-40
PMCID:
PMC2572155
Abstract Full Text PDF–623K Supplementary Material
 Is Cited by the Following 16 Articles in this Archive:
Sequence variability of Rhizobiales orthologs and relationship with physico-chemical characteristics of proteins
Humberto Peralta, Gabriela Guerrero, Alejandro Aguilar, Jaime Mora
Biol Direct. 2011; 6: 48. Published online 2011 October 4. doi: 10.1186/1745-6150-6-48
PMCID:
PMC3198989
Abstract Full Text PDF–1.6M Supplementary Material
Impact of translational error-induced and error-free misfolding on the rate of protein evolution
Jian-Rong Yang, Shi-Mei Zhuang, Jianzhi Zhang
Mol Syst Biol. 2010; 6: 421. Published online 2010 October 19. doi: 10.1038/msb.2010.78
PMCID:
PMC2990641
Abstract Full Text PDF–2.9M Supplementary Material
The rate of the molecular clock and the cost of gratuitous protein synthesis
Germán Plata, Max E Gottesman, Dennis Vitkup
Genome Biol. 2010; 11(9): R98. Published online 2010 September 29. doi: 10.1186/gb-2010-11-9-r98
PMCID:
PMC2965390
Abstract Full Text PDF–714K
The evolutionary rate variation among genes of HOG-signaling pathway in yeast genomes
Xuechang Wu, Xiaoqin Chi, Pinmei Wang, Daoqiong Zheng, Rui Ding, Yudong Li
Biol Direct. 2010; 5: 46. Published online 2010 July 10. doi: 10.1186/1745-6150-5-46
PMCID:
PMC2914728
Abstract Full Text PDF–878K
Gene Promoter Evolution Targets the Center of the Human Protein Interaction Network
Jordi Planas, Josep M. Serrat
PLoS One. 2010; 5(7): e11476. Published online 2010 July 8. doi: 10.1371/journal.pone.0011476
PMCID:
PMC2900212
Abstract Full Text PDF–212K Supplementary Material
Genome factor and gene pleiotropy hypotheses in protein evolution
Yanwu Zeng, Xun Gu
Biol Direct. 2010; 5: 37. Published online 2010 May 24. doi: 10.1186/1745-6150-5-37
PMCID:
PMC2889903
Abstract Full Text PDF–467K
Signatures of protein biophysics in coding sequence evolution
Claus O. Wilke, D. Allan Drummond
Curr Opin Struct Biol. Author manuscript; available in PMC 2011 June 1.
Published in final edited form as: Curr Opin Struct Biol. 2010 June; 20(3): 385–389. Published online 2010 April 13. doi: 10.1016/j.sbi.2010.03.004
PMCID:
PMC2905607
Abstract Full Text PDF–183K
Relative Contributions of Intrinsic Structural–Functional Constraints and Translation Rate to the Evolution of Protein-Coding Genes
Yuri I. Wolf, Irina V. Gopich, David J. Lipman, Eugene V. Koonin
Genome Biol Evol. 2010; 2: 190–199. Published online 2010 March 17. doi: 10.1093/gbe/evq010
PMCID:
PMC2940324
Abstract Full Text PDF–830K
Universal distribution of protein evolution rates as a consequence of protein folding physics
Alexander E. Lobkovsky, Yuri I. Wolf, Eugene V. Koonin
Proc Natl Acad Sci U S A. 2010 February 16; 107(7): 2983–2988. Published online 2010 January 26. doi: 10.1073/pnas.0910445107
PMCID:
PMC2840281
Abstract Full Text PDF–428K Supplementary Material
Systemic factors dominate mammal protein evolution
Alexander E. Vinogradov
Proc Biol Sci. 2010 May 7; 277(1686): 1403–1408. Published online 2010 January 6. doi: 10.1098/rspb.2009.1865
PMCID:
PMC2871935
Abstract Full Text PDF–146K
Selection for minimization of translational frameshifting errors as a factor in the evolution of codon usage
Yang Huang, Eugene V. Koonin, David J. Lipman, Teresa M. Przytycka
Nucleic Acids Res. 2009 November; 37(20): 6799–6810. Published online 2009 November. doi: 10.1093/nar/gkp712
PMCID:
PMC2777431
Abstract Full Text PDF–4.5M Supplementary Material
The evolutionary consequences of erroneous protein synthesis
D. Allan Drummond, Claus O. Wilke
Nat Rev Genet. Author manuscript; available in PMC 2010 April 1.
Published in final edited form as: Nat Rev Genet. 2009 October; 10(10): 715–724. doi: 10.1038/nrg2662
PMCID:
PMC2764353
Abstract Full Text PDF–2.2M
A Universal Nonmonotonic Relationship between Gene Compactness and Expression Levels in Multicellular Eukaryotes
Liran Carmel, Eugene V. Koonin
Genome Biol Evol. 2009; 1: 382–390. Published online 2009 September 22. doi: 10.1093/gbe/evp038
PMCID:
PMC2817431
Abstract Full Text PDF–469K Supplementary Material
Protein Rates of Evolution Are Predicted by Double-Strand Break Events, Independent of Crossing-over Rates
Claudia C. Weber, Laurence D. Hurst
Genome Biol Evol. 2009; 1: 340–349. Published online 2009 September 2. doi: 10.1093/gbe/evp033
PMCID:
PMC2817428
Abstract Full Text PDF–189K Supplementary Material
Darwinian evolution in the light of genomics
Eugene V. Koonin
Nucleic Acids Res. 2009 March; 37(4): 1011–1034. Published online 2009 March. doi: 10.1093/nar/gkp089
PMCID:
PMC2651812
Abstract Full Text PDF–3.8M
An evolutionary and structural characterization of mammalian protein complex organization
Philip Wong, Sonja Althammer, Andrea Hildebrand, Andreas Kirschner, Philipp Pagel, Bernd Geissler, Pawel Smialowski, Florian Blöchl, Matthias Oesterheld, Thorsten Schmidt, Normann Strack, Fabian J Theis, Andreas Ruepp, Dmitrij Frishman
BMC Genomics. 2008; 9: 629. Published online 2008 December 23. doi: 10.1186/1471-2164-9-629
PMCID:
PMC2645396
Abstract Full Text PDF–1.1M Supplementary Material
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