-
1
-
-
0024792699
-
Genetic analysis of protein stability and function
-
Pakula AA, Sauer RT (1989) Genetic analysis of protein stability and function. Annu Rev Genet 23:289-310. (Pubitemid 20033405)
-
(1989)
Annual Review of Genetics
, vol.23
, pp. 289-310
-
-
Pakula, A.A.1
Sauer, R.T.2
-
2
-
-
66649132872
-
Chaperonin overexpression promotes genetic variation and enzyme evolution
-
Tokuriki N, Tawfik DS (2009) Chaperonin overexpression promotes genetic variation and enzyme evolution. Nature 459:668-673.
-
(2009)
Nature
, vol.459
, pp. 668-673
-
-
Tokuriki, N.1
Tawfik, D.S.2
-
3
-
-
45149128433
-
The cost of expression of Escherichia coli lac operon proteins is in the process, not in the products
-
Stoebel DM, Dean AM, Dykhuizen DE (2008) The cost of expression of Escherichia coli lac operon proteins is in the process, not in the products. Genetics 178:1653-1660.
-
(2008)
Genetics
, vol.178
, pp. 1653-1660
-
-
Stoebel, D.M.1
Dean, A.M.2
Dykhuizen, D.E.3
-
4
-
-
0344944630
-
Protein aggregation and aggregate toxicity: New insights into protein folding, misfolding diseases and biological evolution
-
DOI 10.1007/s00109-003-0464-5
-
Stefani M, Dobson CM (2003) Protein aggregation and aggregate toxicity: New insights into protein folding, misfolding diseases and biological evolution. J Mol Med 81:678-699. (Pubitemid 37491594)
-
(2003)
Journal of Molecular Medicine
, vol.81
, Issue.11
, pp. 678-699
-
-
Stefani, M.1
Dobson, C.M.2
-
5
-
-
0037041420
-
Inherent toxicity of aggregates implies a common mechanism for protein misfolding diseases
-
Bucciantini M, et al. (2002) Inherent toxicity of aggregates implies a common mechanism for protein misfolding diseases. Nature 416:507-511.
-
(2002)
Nature
, vol.416
, pp. 507-511
-
-
Bucciantini, M.1
-
6
-
-
26444621352
-
Why highly expressed proteins evolve slowly
-
DOI 10.1073/pnas.0504070102
-
Drummond DA, Bloom JD, Adami C, Wilke CO, Arnold FH (2005) Why highly expressed proteins evolve slowly. Proc Natl Acad Sci USA 102:14338-14343. (Pubitemid 41429699)
-
(2005)
Proceedings of the National Academy of Sciences of the United States of America
, vol.102
, Issue.40
, pp. 14338-14343
-
-
Drummond, D.A.1
Bloom, J.D.2
Adami, C.3
Wilke, C.O.4
Arnold, F.H.5
-
7
-
-
30744441602
-
A single determinant dominates the rate of yeast protein evolution
-
DOI 10.1093/molbev/msj038
-
Drummond DA, Raval A, Wilke CO (2006) A single determinant dominates the rate of yeast protein evolution. Mol Biol Evol 23:327-337. (Pubitemid 43100047)
-
(2006)
Molecular Biology and Evolution
, vol.23
, Issue.2
, pp. 327-337
-
-
Drummond, D.A.1
Raval, A.2
Wilke, C.O.3
-
8
-
-
0034978556
-
Highly expressed genes in yeast evolve slowly
-
Pál C, Papp B, Hurst LD (2001) Highly expressed genes in yeast evolve slowly. Genetics 158:927-931. (Pubitemid 32552328)
-
(2001)
Genetics
, vol.158
, Issue.2
, pp. 927-931
-
-
Pal, C.1
Papp, B.2
Hurst, L.D.3
-
9
-
-
47549097539
-
Mistranslation-induced protein misfolding as a dominant constraint on coding-sequence evolution
-
Drummond DA, Wilke CO (2008) Mistranslation-induced protein misfolding as a dominant constraint on coding-sequence evolution. Cell 134:341-352.
-
(2008)
Cell
, vol.134
, pp. 341-352
-
-
Drummond, D.A.1
Wilke, C.O.2
-
10
-
-
0027135501
-
The function of heat-shock proteins in stress tolerance: Degradation and reactivation of damaged proteins
-
Parsell DA, Lindquist S (1993) The function of heat-shock proteins in stress tolerance: Degradation and reactivation of damaged proteins. Annu Rev Genet 27:437-496.
-
(1993)
Annu Rev Genet
, vol.27
, pp. 437-496
-
-
Parsell, D.A.1
Lindquist, S.2
-
11
-
-
0034724520
-
Functional and genomic analyses reveal an essential coordination between the unfolded protein response and ER-associated degradation
-
Travers KJ, et al. (2000) Functional and genomic analyses reveal an essential coordination between the unfolded protein response and ER-associated degradation. Cell 101:249-258.
-
(2000)
Cell
, vol.101
, pp. 249-258
-
-
Travers, K.J.1
-
12
-
-
38749112941
-
Coordination of growth rate, cell cycle, stress response, and metabolic activity in yeast
-
Brauer MJ, et al. (2008) Coordination of growth rate, cell cycle, stress response, and metabolic activity in yeast. Mol Biol Cell 19:352-367.
-
(2008)
Mol Biol Cell
, vol.19
, pp. 352-367
-
-
Brauer, M.J.1
-
13
-
-
64749086697
-
The cytosolic protein response as a subcomponent of the wider heat shock response in Arabidopsis
-
Sugio A, Dreos R, Aparicio F, Maule AJ (2009) The cytosolic protein response as a subcomponent of the wider heat shock response in Arabidopsis. Plant Cell 21: 642-654.
-
(2009)
Plant Cell
, vol.21
, pp. 642-654
-
-
Sugio, A.1
Dreos, R.2
Aparicio, F.3
Maule, A.J.4
-
14
-
-
27244458549
-
Virus induction of heat shock protein 70 reflects a general response to protein accumulation in the plant cytosol
-
DOI 10.1104/pp.104.058958
-
Aparicio F, et al. (2005) Virus induction of heat shock protein 70 reflects a general response to protein accumulation in the plant cytosol. Plant Physiol 138:529-536. (Pubitemid 43138149)
-
(2005)
Plant Physiology
, vol.138
, Issue.1
, pp. 529-536
-
-
Aparicio, F.1
Thomas, C.L.2
Lederer, C.3
Niu, Y.4
Wang, D.5
Maule, A.J.6
-
15
-
-
64049090940
-
Analysis of quality control substrates in distinct cellular compartments reveals a unique role for Rpn4p in tolerating misfolded membrane proteins
-
Metzger MB, Michaelis S (2009) Analysis of quality control substrates in distinct cellular compartments reveals a unique role for Rpn4p in tolerating misfolded membrane proteins. Mol Biol Cell 20:1006-1019.
-
(2009)
Mol Biol Cell
, vol.20
, pp. 1006-1019
-
-
Metzger, M.B.1
Michaelis, S.2
-
16
-
-
62149129690
-
Destabilizing protein polymorphisms in the genetic background direct phenotypic expression of mutant SOD1 toxicity
-
Gidalevitz T, Krupinski T, Garcia S, Morimoto RI (2009) Destabilizing protein polymorphisms in the genetic background direct phenotypic expression of mutant SOD1 toxicity. PLoS Genet 5:e1000399.
-
(2009)
PLoS Genet
, vol.5
-
-
Gidalevitz, T.1
Krupinski, T.2
Garcia, S.3
Morimoto, R.I.4
-
17
-
-
0024709959
-
Induction of a heat shock-like response by unfolded protein in Escherichia coli: Dependence on protein level not protein degradation
-
Parsell DA, Sauer RT (1989) Induction of a heat shock-like response by unfolded protein in Escherichia coli: Dependence on protein level not protein degradation. Genes Dev 3:1226-1232.
-
(1989)
Genes Dev
, vol.3
, pp. 1226-1232
-
-
Parsell, D.A.1
Sauer, R.T.2
-
18
-
-
77957129279
-
The rate of the molecular clock and the cost of gratuitous protein synthesis
-
Plata G, Gottesman ME, Vitkup D (2010) The rate of the molecular clock and the cost of gratuitous protein synthesis. Genome Biol 11:R98.
-
(2010)
Genome Biol
, vol.11
-
-
Plata, G.1
Gottesman, M.E.2
Vitkup, D.3
-
19
-
-
0037173615
-
Functional profiling of the Saccharomyces cerevisiae genome
-
Giaever G, et al. (2002) Functional profiling of the Saccharomyces cerevisiae genome. Nature 418:387-391.
-
(2002)
Nature
, vol.418
, pp. 387-391
-
-
Giaever, G.1
-
20
-
-
23144432213
-
Optimality and evolutionary tuning of the expression level of a protein
-
DOI 10.1038/nature03842
-
Dekel E, Alon U (2005) Optimality and evolutionary tuning of the expression level of a protein. Nature 436:588-592. (Pubitemid 41112935)
-
(2005)
Nature
, vol.436
, Issue.7050
, pp. 588-592
-
-
Dekel, E.1
Alon, U.2
-
21
-
-
48449087454
-
A comprehensive strategy enabling high-resolution functional analysis of the yeast genome
-
Breslow DK, et al. (2008) A comprehensive strategy enabling high-resolution functional analysis of the yeast genome. Nat Methods 5:711-718.
-
(2008)
Nat Methods
, vol.5
, pp. 711-718
-
-
Breslow, D.K.1
-
22
-
-
0028907619
-
Gratuitous overexpression of genes in Escherichia coli leads to growth inhibition and ribosome destruction
-
Dong H, Nilsson L, Kurland CG (1995) Gratuitous overexpression of genes in Escherichia coli leads to growth inhibition and ribosome destruction. J Bacteriol 177: 1497-1504.
-
(1995)
J Bacteriol
, vol.177
, pp. 1497-1504
-
-
Dong, H.1
Nilsson, L.2
Kurland, C.G.3
-
23
-
-
34047258309
-
Positive-feedback loops as a flexible biological module
-
Ingolia NT, Murray AW (2007) Positive-feedback loops as a flexible biological module. Curr Biol 17:668-677.
-
(2007)
Curr Biol
, vol.17
, pp. 668-677
-
-
Ingolia, N.T.1
Murray, A.W.2
-
24
-
-
0030452512
-
Mutations that suppress the thermosensitivity of green fluorescent protein
-
Siemering KR, Golbik R, Sever R, Haseloff J (1996) Mutations that suppress the thermosensitivity of green fluorescent protein. Curr Biol 6:1653-1663. (Pubitemid 27050233)
-
(1996)
Current Biology
, vol.6
, Issue.12
, pp. 1653-1663
-
-
Siemering, K.R.1
Golbik, R.2
Sever, R.3
Haseloff, J.4
-
25
-
-
67649327180
-
Lack of evolutionary conservation at positions important for thermal stability in the yeast ODCase protein
-
Jakubowska A, Korona R (2009) Lack of evolutionary conservation at positions important for thermal stability in the yeast ODCase protein. Mol Biol Evol 26: 1431-1434.
-
(2009)
Mol Biol Evol
, vol.26
, pp. 1431-1434
-
-
Jakubowska, A.1
Korona, R.2
-
26
-
-
50649116818
-
Misfolded proteins partition between two distinct quality control compartments
-
Kaganovich D, Kopito R, Frydman J (2008) Misfolded proteins partition between two distinct quality control compartments. Nature 454:1088-1095.
-
(2008)
Nature
, vol.454
, pp. 1088-1095
-
-
Kaganovich, D.1
Kopito, R.2
Frydman, J.3
-
27
-
-
0029670330
-
Improved green fluorescent protein by molecular evolution using DNA shuffling
-
Crameri A, Whitehorn EA, Tate E, Stemmer WP (1996) Improved green fluorescent protein by molecular evolution using DNA shuffling. Nat Biotechnol 14:315-319. (Pubitemid 26150145)
-
(1996)
Nature Biotechnology
, vol.14
, Issue.3
, pp. 315-319
-
-
Crameri, A.1
Whitehorn, E.A.2
Tate, E.3
Stemmer, W.P.C.4
-
28
-
-
57449099865
-
MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification
-
Cox J, Mann M (2008) MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification. Nat Biotechnol 26:1367-1372.
-
(2008)
Nat Biotechnol
, vol.26
, pp. 1367-1372
-
-
Cox, J.1
Mann, M.2
-
29
-
-
0142215475
-
Global analysis of protein expression in yeast
-
DOI 10.1038/nature02046
-
Ghaemmaghami S, et al. (2003) Global analysis of protein expression in yeast. Nature 425:737-741. (Pubitemid 37314318)
-
(2003)
Nature
, vol.425
, Issue.6959
, pp. 737-741
-
-
Ghaemmaghami, S.1
Huh, W.-K.2
Bower, K.3
Howson, R.W.4
Belle, A.5
Dephoure, N.6
O'Shea, E.K.7
Weissman, J.S.8
-
30
-
-
33846165487
-
Absolute protein expression profiling estimates the relative contributions of transcriptional and translational regulation
-
Lu P, Vogel C, Wang R, Yao X, Marcotte EM (2007) Absolute protein expression profiling estimates the relative contributions of transcriptional and translational regulation. Nat Biotechnol 25:117-124.
-
(2007)
Nat Biotechnol
, vol.25
, pp. 117-124
-
-
Lu, P.1
Vogel, C.2
Wang, R.3
Yao, X.4
Marcotte, E.M.5
-
31
-
-
33745220278
-
Single-cell proteomic analysis of S. cerevisiae reveals the architecture of biological noise
-
Newman JR, et al. (2006) Single-cell proteomic analysis of S. cerevisiae reveals the architecture of biological noise. Nature 441:840-846.
-
(2006)
Nature
, vol.441
, pp. 840-846
-
-
Newman, J.R.1
-
32
-
-
55249096894
-
Comprehensive mass spectrometry-based proteome quantification of haploid versus diploid yeast
-
de Godoy LM, et al. (2008) Comprehensive mass spectrometry-based proteome quantification of haploid versus diploid yeast. Nature 455:1251-1254.
-
(2008)
Nature
, vol.455
, pp. 1251-1254
-
-
De Godoy, L.M.1
-
33
-
-
0032503968
-
Hsp104, Hsp70, and Hsp40: A novel chaperone system that rescues previously aggregated proteins
-
Glover JR, Lindquist S (1998) Hsp104, Hsp70, and Hsp40: A novel chaperone system that rescues previously aggregated proteins. Cell 94:73-82.
-
(1998)
Cell
, vol.94
, pp. 73-82
-
-
Glover, J.R.1
Lindquist, S.2
-
34
-
-
33644873683
-
The YEASTRACT database: A tool for the analysis of transcription regulatory associations in Saccharomyces cerevisiae
-
Teixeira MC, et al. (2006) The YEASTRACT database: A tool for the analysis of transcription regulatory associations in Saccharomyces cerevisiae. Nucleic Acids Res 34:D446-D451.
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Teixeira, M.C.1
-
35
-
-
0346736509
-
Misfolded proteins are competent to mediate a subset of the responses to heat shock in Saccharomyces cerevisiae
-
Trotter EW, et al. (2002) Misfolded proteins are competent to mediate a subset of the responses to heat shock in Saccharomyces cerevisiae. J Biol Chem 277:44817-44825.
-
(2002)
J Biol Chem
, vol.277
, pp. 44817-44825
-
-
Trotter, E.W.1
-
36
-
-
38949161446
-
Different requirements of the SWI/SNF complex for robust nucleosome displacement at promoters of heat shock factor and Msn2- and Msn4-regulated heat shock genes
-
Erkina TY, Tschetter PA, Erkine AM (2008) Different requirements of the SWI/SNF complex for robust nucleosome displacement at promoters of heat shock factor and Msn2- and Msn4-regulated heat shock genes. Mol Cell Biol 28:1207-1217.
-
(2008)
Mol Cell Biol
, vol.28
, pp. 1207-1217
-
-
Erkina, T.Y.1
Tschetter, P.A.2
Erkine, A.M.3
-
37
-
-
0345306751
-
The origins of genome complexity
-
Lynch M, Conery JS (2003) The origins of genome complexity. Science 302:1401-1404.
-
(2003)
Science
, vol.302
, pp. 1401-1404
-
-
Lynch, M.1
Conery, J.S.2
-
38
-
-
33646127577
-
Molecular chaperones and protein quality control
-
Bukau B, Weissman J, Horwich A (2006) Molecular chaperones and protein quality control. Cell 125:443-451.
-
(2006)
Cell
, vol.125
, pp. 443-451
-
-
Bukau, B.1
Weissman, J.2
Horwich, A.3
-
39
-
-
33748901113
-
Ubiquitin-like protein 5 positively regulates chaperone gene expression in the mitochondrial unfolded protein response
-
Benedetti C, Haynes CM, Yang Y, Harding HP, Ron D (2006) Ubiquitin-like protein 5 positively regulates chaperone gene expression in the mitochondrial unfolded protein response. Genetics 174:229-239.
-
(2006)
Genetics
, vol.174
, pp. 229-239
-
-
Benedetti, C.1
Haynes, C.M.2
Yang, Y.3
Harding, H.P.4
Ron, D.5
-
40
-
-
0022455603
-
Abnormal proteins serve as eukaryotic stress signals and trigger the activation of heat shock genes
-
Ananthan J, Goldberg AL, Voellmy R (1986) Abnormal proteins serve as eukaryotic stress signals and trigger the activation of heat shock genes. Science 232:522-524.
-
(1986)
Science
, vol.232
, pp. 522-524
-
-
Ananthan, J.1
Goldberg, A.L.2
Voellmy, R.3
-
41
-
-
0032579440
-
Designer deletion strains derived from Saccharomyces cerevisiae S288C: A useful set of strains and plasmids for PCR-mediated gene disruption and other applications
-
Brachmann CB, et al. (1998) Designer deletion strains derived from Saccharomyces cerevisiae S288C: A useful set of strains and plasmids for PCR-mediated gene disruption and other applications. Yeast 14:115-132.
-
(1998)
Yeast
, vol.14
, pp. 115-132
-
-
Brachmann, C.B.1
-
43
-
-
0037022365
-
Complementary whole-genome technologies reveal the cellular response to proteasome inhibition by PS-341
-
Fleming JA, et al. (2002) Complementary whole-genome technologies reveal the cellular response to proteasome inhibition by PS-341. Proc Natl Acad Sci USA 99: 1461-1466.
-
(2002)
Proc Natl Acad Sci USA
, vol.99
, pp. 1461-1466
-
-
Fleming, J.A.1
|