-
1
-
-
0035839136
-
Translating the histone code
-
Jenuwein, T. & Allis, C.D. Translating the histone code. Science 293, 1074-1080 (2001).
-
(2001)
Science
, vol.293
, pp. 1074-1080
-
-
Jenuwein, T.1
Allis, C.D.2
-
2
-
-
36749010218
-
The age of crosstalk: Phosphorylation, ubiquitination, and beyond
-
Hunter, T. The age of crosstalk: phosphorylation, ubiquitination, and beyond. Mol. Cell 28, 730-738 (2007).
-
(2007)
Mol. Cell
, vol.28
, pp. 730-738
-
-
Hunter, T.1
-
3
-
-
20144386846
-
14-3-3 proteins modulate the expression of epithelial Na+ channels by phosphorylation-dependent interaction with Nedd4-2 ubiquitin ligase
-
Ichimura, T. et al. 14-3-3 proteins modulate the expression of epithelial Na+ channels by phosphorylation-dependent interaction with Nedd4-2 ubiquitin ligase. J. Biol. Chem. 280, 13187-13194 (2005).
-
(2005)
J. Biol. Chem.
, vol.280
, pp. 13187-13194
-
-
Ichimura, T.1
-
4
-
-
0033592868
-
Rapid ATM-dependent phosphorylation of MDM2 precedes p53 accumulation in response to DNA damage
-
Khosravi, R. et al. Rapid ATM-dependent phosphorylation of MDM2 precedes p53 accumulation in response to DNA damage. Proc. Natl. Acad. Sci. USA 96, 14973-14977 (1999).
-
(1999)
Proc. Natl. Acad. Sci. USA
, vol.96
, pp. 14973-14977
-
-
Khosravi, R.1
-
5
-
-
80054694510
-
Global identification of modular cullin-RING ligase substrates
-
Emanuele, M.J. et al. Global identification of modular cullin-RING ligase substrates. Cell 147, 459-474 (2011).
-
(2011)
Cell
, vol.147
, pp. 459-474
-
-
Emanuele, M.J.1
-
6
-
-
82455179484
-
Systematic and quantitative assessment of the ubiquitin-modified proteome
-
Kim, W. et al. Systematic and quantitative assessment of the ubiquitin-modified proteome. Mol. Cell 44, 325-340 (2011).
-
(2011)
Mol. Cell
, vol.44
, pp. 325-340
-
-
Kim, W.1
-
7
-
-
80054033461
-
A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles
-
Wagner, S.A. et al. A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles. Mol. Cell Proteomics 10, M111.013284 (2011).
-
(2011)
Mol. Cell Proteomics
, vol.10
-
-
Wagner, S.A.1
-
8
-
-
77951644400
-
Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis
-
Olsen, J.V. et al. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. Sci. Signal. 3, ra3 (2010).
-
(2010)
Sci. Signal.
, vol.3
-
-
Olsen, J.V.1
-
9
-
-
78650466243
-
A tissue-specific atlas of mouse protein phosphorylation and expression
-
Huttlin, E.L. et al. A tissue-specific atlas of mouse protein phosphorylation and expression. Cell 143, 1174-1189 (2010).
-
(2010)
Cell
, vol.143
, pp. 1174-1189
-
-
Huttlin, E.L.1
-
10
-
-
84863420067
-
Cross-talk between phosphorylation and lysine acetylation in a genome-reduced bacterium
-
van Noort, V. et al. Cross-talk between phosphorylation and lysine acetylation in a genome-reduced bacterium. Mol. Syst. Biol. 8, 571 (2012).
-
(2012)
Mol. Syst. Biol.
, vol.8
, pp. 571
-
-
Van Noort, V.1
-
11
-
-
79961009220
-
SUMOylation-regulated protein phosphorylation, evidence from quantitative phosphoproteomics analyses
-
Yao, Q., Li, H., Liu, B.Q., Huang, X.Y. & Guo, L. SUMOylation-regulated protein phosphorylation, evidence from quantitative phosphoproteomics analyses. J. Biol. Chem. 286, 27342-27349 (2011).
-
(2011)
J. Biol. Chem.
, vol.286
, pp. 27342-27349
-
-
Yao, Q.1
Li, H.2
Liu, B.Q.3
Huang, X.Y.4
Guo, L.5
-
12
-
-
84864213113
-
Systematic functional prioritization of protein posttranslational modifications
-
Beltrao, P. et al. Systematic functional prioritization of protein posttranslational modifications. Cell 150, 413-425 (2012).
-
(2012)
Cell
, vol.150
, pp. 413-425
-
-
Beltrao, P.1
-
13
-
-
0041706156
-
A proteomics approach to understanding protein ubiquitination
-
Peng, J. et al. A proteomics approach to understanding protein ubiquitination. Nat. Biotechnol. 21, 921-926 (2003).
-
(2003)
Nat. Biotechnol.
, vol.21
, pp. 921-926
-
-
Peng, J.1
-
14
-
-
4344574540
-
Large-scale characterization of HeLa cell nuclear phosphoproteins
-
Beausoleil, S.A. et al. Large-scale characterization of HeLa cell nuclear phosphoproteins. Proc. Natl. Acad. Sci. USA 101, 12130-12135 (2004).
-
(2004)
Proc. Natl. Acad. Sci. USA
, vol.101
, pp. 12130-12135
-
-
Beausoleil, S.A.1
-
15
-
-
66349106471
-
Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach
-
Gauci, S. et al. Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach. Anal. Chem. 81, 4493-4501 (2009).
-
(2009)
Anal. Chem.
, vol.81
, pp. 4493-4501
-
-
Gauci, S.1
-
16
-
-
77955957347
-
Evolution of characterized phosphorylation sites in budding yeast
-
Nguyen Ba, A.N. & Moses, A.M. Evolution of characterized phosphorylation sites in budding yeast. Mol. Biol. Evol. 27, 2027-2037 (2010).
-
(2010)
Mol. Biol. Evol.
, vol.27
, pp. 2027-2037
-
-
Nguyen Ba, A.N.1
Moses, A.M.2
-
17
-
-
65349155149
-
Weak functional constraints on phosphoproteomes
-
Landry, C.R., Levy, E.D. & Michnick, S.W. Weak functional constraints on phosphoproteomes. Trends Genet. 25, 193-197 (2009).
-
(2009)
Trends Genet.
, vol.25
, pp. 193-197
-
-
Landry, C.R.1
Levy, E.D.2
Michnick, S.W.3
-
18
-
-
82555205273
-
Cascades of multisite phosphorylation control Sic1 destruction at the onset of S phase
-
Kõivomägi, M. et al. Cascades of multisite phosphorylation control Sic1 destruction at the onset of S phase. Nature 480, 128-131 (2011).
-
(2011)
Nature
, vol.480
, pp. 128-131
-
-
Kõivomägi, M.1
-
19
-
-
0035969559
-
Multisite phosphorylation of a CDK inhibitor sets a threshold for the onset of DNA replication
-
Nash, P. et al. Multisite phosphorylation of a CDK inhibitor sets a threshold for the onset of DNA replication. Nature 414, 514-521 (2001).
-
(2001)
Nature
, vol.414
, pp. 514-521
-
-
Nash, P.1
-
20
-
-
0030693702
-
Phosphorylation- and ubiquitin-dependent degradation of the cyclin-dependent kinase inhibitor Far1p in budding yeast
-
Henchoz, S. et al. Phosphorylation- and ubiquitin-dependent degradation of the cyclin-dependent kinase inhibitor Far1p in budding yeast. Genes Dev. 11, 3046-3060 (1997).
-
(1997)
Genes Dev.
, vol.11
, pp. 3046-3060
-
-
Henchoz, S.1
-
21
-
-
0032538796
-
Control of Swe1p degradation by the morphogenesis checkpoint
-
Sia, R.A.L., Bardes, E.S.G. & Lew, D.J. Control of Swe1p degradation by the morphogenesis checkpoint. EMBO J. 17, 6678-6688 (1998).
-
(1998)
EMBO J.
, vol.17
, pp. 6678-6688
-
-
Sia, R.A.L.1
Bardes, E.S.G.2
Lew, D.J.3
-
22
-
-
33748377124
-
Quantification of protein half-lives in the budding yeast proteome
-
Belle, A. Quantification of protein half-lives in the budding yeast proteome. Proc. Natl. Acad. Sci. USA 103, 13004-13009 (2006).
-
(2006)
Proc. Natl. Acad. Sci. USA
, vol.103
, pp. 13004-13009
-
-
Belle, A.1
-
23
-
-
78751531102
-
SCFCdc4 enables mating type switching in yeast by cyclin-dependent kinase-mediated elimination of the Ash1 transcriptional repressor
-
Liu, Q. et al. SCFCdc4 enables mating type switching in yeast by cyclin-dependent kinase-mediated elimination of the Ash1 transcriptional repressor. Mol. Cell Biol. 31, 584-598 (2011).
-
(2011)
Mol. Cell Biol.
, vol.31
, pp. 584-598
-
-
Liu, Q.1
-
24
-
-
1542467522
-
DNA damage response-mediated degradation of Ho endonuclease via the ubiquitin system involves its nuclear export
-
Kaplun, L., Ivantsiv, Y., Bakhrat, A. & Raveh, D. DNA damage response-mediated degradation of Ho endonuclease via the ubiquitin system involves its nuclear export. J. Biol. Chem. 278, 48727-48734 (2003).
-
(2003)
J. Biol. Chem.
, vol.278
, pp. 48727-48734
-
-
Kaplun, L.1
Ivantsiv, Y.2
Bakhrat, A.3
Raveh, D.4
-
25
-
-
55749111064
-
A refined two-hybrid system reveals that SCFCdc4-dependent degradation of Swi5 contributes to the regulatory mechanism of S-phase entry
-
Kishi, T., Ikeda, A., Koyama, N., Fukada, J. & Nagao, R. A refined two-hybrid system reveals that SCFCdc4-dependent degradation of Swi5 contributes to the regulatory mechanism of S-phase entry. Proc. Natl. Acad. Sci. USA 105, 14497-14502 (2008).
-
(2008)
Proc. Natl. Acad. Sci. USA
, vol.105
, pp. 14497-14502
-
-
Kishi, T.1
Ikeda, A.2
Koyama, N.3
Fukada, J.4
Nagao, R.5
-
26
-
-
0027300297
-
SWI5 instability may be necessary but is not sufficient for asymmetric HO expression in yeast
-
Tebb, G., Moll, T., Dowzer, C. & Nasmyth, K. SWI5 instability may be necessary but is not sufficient for asymmetric HO expression in yeast. Genes Dev. 7, 517-528 (1993).
-
(1993)
Genes Dev.
, vol.7
, pp. 517-528
-
-
Tebb, G.1
Moll, T.2
Dowzer, C.3
Nasmyth, K.4
-
27
-
-
0032530333
-
The Cdc42p effector Gic2p is targeted for ubiquitin-dependent degradation by the SCFGrr1 complex
-
Jaquenoud, M., Gulli, M.P., Peter, K. & Peter, M. The Cdc42p effector Gic2p is targeted for ubiquitin-dependent degradation by the SCFGrr1 complex. EMBO J. 17, 5360-5373 (1998).
-
(1998)
EMBO J.
, vol.17
, pp. 5360-5373
-
-
Jaquenoud, M.1
Gulli, M.P.2
Peter, K.3
Peter, M.4
-
28
-
-
67651121737
-
14-3-3 and FHA domains mediate phosphoprotein interactions
-
Chevalier, D., Morris, E.R. & Walker, J.C. 14-3-3 and FHA domains mediate phosphoprotein interactions. Annu. Rev. Plant Biol. 60, 67-91 (2009).
-
(2009)
Annu. Rev. Plant Biol.
, vol.60
, pp. 67-91
-
-
Chevalier, D.1
Morris, E.R.2
Walker, J.C.3
-
29
-
-
64549122329
-
Computational studies of protein regulation by post-translational phosphorylation
-
Narayanan, A. & Jacobson, M.P. Computational studies of protein regulation by post-translational phosphorylation. Curr. Opin. Struct. Biol. 19, 156-163 (2009).
-
(2009)
Curr. Opin. Struct. Biol.
, vol.19
, pp. 156-163
-
-
Narayanan, A.1
Jacobson, M.P.2
-
30
-
-
84855973994
-
Sites of ubiquitin attachment in Saccharomyces cerevisiae
-
Starita, L.M., Lo, R.S., Eng, J.K., von Haller, P.D. & Fields, S. Sites of ubiquitin attachment in Saccharomyces cerevisiae. Proteomics 12, 236-240 (2012).
-
(2012)
Proteomics
, vol.12
, pp. 236-240
-
-
Starita, L.M.1
Lo, R.S.2
Eng, J.K.3
Von Haller, P.D.4
Fields, S.5
-
31
-
-
0034616943
-
Cell cycle-regulated modification of the ribosome by a variant multiubiquitin chain
-
Spence, J. et al. Cell cycle-regulated modification of the ribosome by a variant multiubiquitin chain. Cell 102, 67-76 (2000).
-
(2000)
Cell
, vol.102
, pp. 67-76
-
-
Spence, J.1
-
32
-
-
0036428393
-
Amino acid residue specific stable isotope labeling for quantitative proteomics
-
Zhu, H., Pan, S., Gu, S., Bradbury, E.M. & Chen, X. Amino acid residue specific stable isotope labeling for quantitative proteomics. Rapid Commun. Mass Spectrom. 16, 2115-2123 (2002).
-
(2002)
Rapid Commun. Mass Spectrom.
, vol.16
, pp. 2115-2123
-
-
Zhu, H.1
Pan, S.2
Gu, S.3
Bradbury, E.M.4
Chen, X.5
-
33
-
-
0036583926
-
Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics
-
Ong, S.-E. Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. Mol. Cell Proteomics 1, 376-386 (2002).
-
(2002)
Mol. Cell Proteomics
, vol.1
, pp. 376-386
-
-
Ong, S.-E.1
-
34
-
-
33846785485
-
Large-scale phosphorylation analysis of mouse liver
-
Villén, J., Beausoleil, S.A., Gerber, S.A. & Gygi, S.P. Large-scale phosphorylation analysis of mouse liver. Proc. Natl. Acad. Sci. USA 104, 1488-1493 (2007).
-
(2007)
Proc. Natl. Acad. Sci. USA
, vol.104
, pp. 1488-1493
-
-
Villén, J.1
Beausoleil, S.A.2
Gerber, S.A.3
Gygi, S.P.4
-
35
-
-
84984933087
-
The SCX/IMAC enrichment approach for global phosphorylation analysis by mass spectrometry
-
Villén, J. & Gygi, S.P. The SCX/IMAC enrichment approach for global phosphorylation analysis by mass spectrometry. Nat. Protoc. 3, 1630-1638 (2008).
-
(2008)
Nat. Protoc.
, vol.3
, pp. 1630-1638
-
-
Villén, J.1
Gygi, S.P.2
-
36
-
-
0037317228
-
Stop and go extraction tips for matrix-assisted laser desorption/ionization, nanoelectrospray, and LC/MS sample pretreatment in proteomics
-
Rappsilber, J., Ishihama, Y. & Mann, M. Stop and go extraction tips for matrix-assisted laser desorption/ionization, nanoelectrospray, and LC/MS sample pretreatment in proteomics. Anal. Chem. 75, 663-670 (2003).
-
(2003)
Anal. Chem.
, vol.75
, pp. 663-670
-
-
Rappsilber, J.1
Ishihama, Y.2
Mann, M.3
-
37
-
-
21144458164
-
Immunoaffinity profiling of tyrosine phosphorylation in cancer cells
-
Rush, J. et al. Immunoaffinity profiling of tyrosine phosphorylation in cancer cells. Nat. Biotechnol. 23, 94-101 (2005).
-
(2005)
Nat. Biotechnol.
, vol.23
, pp. 94-101
-
-
Rush, J.1
-
38
-
-
66349093926
-
Magnetic bead processor for rapid evaluation and optimization of parameters for phosphopeptide enrichment
-
Ficarro, S.B. et al. Magnetic bead processor for rapid evaluation and optimization of parameters for phosphopeptide enrichment. Anal. Chem. 81, 4566-4575 (2009).
-
(2009)
Anal. Chem.
, vol.81
, pp. 4566-4575
-
-
Ficarro, S.B.1
-
39
-
-
0000857494
-
An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database
-
Eng, J.K., McCormack, A.L. & Yates, J.R. III. An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database. J. Am. Soc. Mass Spectrom. 5, 976-989 (1994).
-
(1994)
J. Am. Soc. Mass Spectrom
, vol.5
, pp. 976-989
-
-
Eng, J.K.1
McCormack, A.L.2
Yates Iii, J.R.3
-
40
-
-
33847630405
-
Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry
-
Elias, J.E. & Gygi, S.P. Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry. Nat. Methods 4, 207-214 (2007).
-
(2007)
Nat. Methods
, vol.4
, pp. 207-214
-
-
Elias, J.E.1
Gygi, S.P.2
-
41
-
-
33749853607
-
A probability-based approach for high-throughput protein phosphorylation analysis and site localization
-
Beausoleil, S.A., Villén, J., Gerber, S.A., Rush, J. & Gygi, S.P. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. Nat. Biotechnol. 24, 1285-1292 (2006).
-
(2006)
Nat. Biotechnol.
, vol.24
, pp. 1285-1292
-
-
Beausoleil, S.A.1
Villén, J.2
Gerber, S.A.3
Rush, J.4
Gygi, S.P.5
-
42
-
-
28444478789
-
Biochemical and genetic analysis of the yeast proteome with a movable ORF collection
-
Gelperin, D.M. et al. Biochemical and genetic analysis of the yeast proteome with a movable ORF collection. Genes Dev. 19, 2816-2826 (2005).
-
(2005)
Genes Dev.
, vol.19
, pp. 2816-2826
-
-
Gelperin, D.M.1
-
43
-
-
3042666256
-
MUSCLE: Multiple sequence alignment with high accuracy and high throughput
-
Edgar, R.C. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32, 1792-1797 (2004).
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 1792-1797
-
-
Edgar, R.C.1
-
44
-
-
84857047339
-
PhosphoSitePlus: A comprehensive resource for investigating the structure and function of experimentally determined post-translational modifications in man and mouse
-
Hornbeck, P.V. et al. PhosphoSitePlus: a comprehensive resource for investigating the structure and function of experimentally determined post-translational modifications in man and mouse. Nucleic Acids Res. 40, D261-D270 (2012).
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Hornbeck, P.V.1
-
45
-
-
13444256478
-
Inparanoid: A comprehensive database of eukaryotic orthologs
-
O'Brien, K.P., Remm, M. & Sonnhammer, E.L. Inparanoid: a comprehensive database of eukaryotic orthologs. Nucleic Acids Res. 33, D476-D480 (2005).
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
O'brien, K.P.1
Remm, M.2
Sonnhammer, E.L.3
-
46
-
-
77954339096
-
Babelomics: An integrative platform for the analysis of transcriptomics, proteomics and genomic data with advanced functional profiling
-
Medina, I. et al. Babelomics: an integrative platform for the analysis of transcriptomics, proteomics and genomic data with advanced functional profiling. Nucleic Acids Res. 38, W210-W213 (2010).
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Medina, I.1
-
47
-
-
9144244232
-
MODBASE, A database of annotated comparative protein structure models, and associated resources
-
Pieper, U. et. al. MODBASE, a database of annotated comparative protein structure models, and associated resources. Nucleic Acids Res. 32, D217-D222 (2004).
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Pieper, U.1
|