-
1
-
-
0034383949
-
The regulation of protein function by multisite phosphorylation - a 25 year update
-
Cohen, P. The regulation of protein function by multisite phosphorylation - a 25 year update. Trends Biochem. Sci. 2000, 25 (12), 596-601.
-
(2000)
Trends Biochem. Sci
, vol.25
, Issue.12
, pp. 596-601
-
-
Cohen, P.1
-
2
-
-
0034614490
-
Signaling-2000 and beyond
-
Hunter, T. Signaling-2000 and beyond. Cell 2000, 100, 113-127.
-
(2000)
Cell
, vol.100
, pp. 113-127
-
-
Hunter, T.1
-
3
-
-
0034651752
-
Protein phosphorylation and protein phosphatases
-
Zolnierowicz, S.; Bollen, M. Protein phosphorylation and protein phosphatases. EMBO J. 2000, 19 (4), 483-488.
-
(2000)
EMBO J
, vol.19
, Issue.4
, pp. 483-488
-
-
Zolnierowicz, S.1
Bollen, M.2
-
4
-
-
33644852886
-
Optimization and use of peptide mass measurement accuracy in shotgun proteomics
-
Haas, W.; Faherty, B. K.; Gerber, S. A.; Elias, J. E.; Beausoleil, S. A.; Bakalarski, C. E.; Li, X.; Villén, J.; Gygi, S. P. Optimization and use of peptide mass measurement accuracy in shotgun proteomics. Mol. Cell. Proteomics 2006, 5 (7), 1326-1337.
-
(2006)
Mol. Cell. Proteomics
, vol.5
, Issue.7
, pp. 1326-1337
-
-
Haas, W.1
Faherty, B.K.2
Gerber, S.A.3
Elias, J.E.4
Beausoleil, S.A.5
Bakalarski, C.E.6
Li, X.7
Villén, J.8
Gygi, S.P.9
-
5
-
-
62349122241
-
High accuracy mass spectrometry in largescale analysis of protein phosphorylation
-
Olsen, J. V.; Macek, B. High accuracy mass spectrometry in largescale analysis of protein phosphorylation. Methods Mol. Biol. 2009, 492, 131-142.
-
(2009)
Methods Mol. Biol
, vol.492
, pp. 131-142
-
-
Olsen, J.V.1
Macek, B.2
-
6
-
-
59049086847
-
Human embryonic stem cell phosphoproteome revealed by electron transfer dissociation tandem mass spectrometry
-
Swaney, D. L.; Wenger, C. D.; Thomson, J. A.; Coon, J. J. Human embryonic stem cell phosphoproteome revealed by electron transfer dissociation tandem mass spectrometry. Proc. Natl. Acad. Sci. U.S.A. 2009, 106 (4), 995-1000.
-
(2009)
Proc. Natl. Acad. Sci. U.S.A
, vol.106
, Issue.4
, pp. 995-1000
-
-
Swaney, D.L.1
Wenger, C.D.2
Thomson, J.A.3
Coon, J.J.4
-
7
-
-
33847778786
-
-
Chi, A.; Huttenhower, C.; Geer, L. Y.; Coon, J. J.; Syka, J. E.; Bai, D. L.; Shabanowitz, J.; Burke, D. J.; Troyanskaya, O. G.; Hunt, D. F. Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry. Proc. Natl. Acad. Sci. U.S.A. 2007, 104 (7)), 2193-2198.
-
Chi, A.; Huttenhower, C.; Geer, L. Y.; Coon, J. J.; Syka, J. E.; Bai, D. L.; Shabanowitz, J.; Burke, D. J.; Troyanskaya, O. G.; Hunt, D. F. Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry. Proc. Natl. Acad. Sci. U.S.A. 2007, 104 (7)), 2193-2198.
-
-
-
-
8
-
-
0034624002
-
Identification of a novel immunoreceptor tyrosine-based activation motif-containing molecule, STAM2, by mass spectrometry and its involvement in growth factor and cytokine receptor signaling pathways
-
Pandey, A.; Fernandez, M. M.; Steen, H.; Blagoev, B.; Nielsen, M. M.; Roche, S.; Mann, M.; Lodish, H. F. Identification of a novel immunoreceptor tyrosine-based activation motif-containing molecule, STAM2, by mass spectrometry and its involvement in growth factor and cytokine receptor signaling pathways. J. Biol. Chem. 2000, 275, 38633-38639.
-
(2000)
J. Biol. Chem
, vol.275
, pp. 38633-38639
-
-
Pandey, A.1
Fernandez, M.M.2
Steen, H.3
Blagoev, B.4
Nielsen, M.M.5
Roche, S.6
Mann, M.7
Lodish, H.F.8
-
9
-
-
36749061271
-
Quantitative phosphoproteome profiling of Wnt3a-mediated signaling network: Indicating the involvement of ribonucleoside-diphosphate reductase M2 subunit phosphorylation at residue serine 20 in canonical Wnt signal transduction
-
Tang, L. Y.; Deng, N.; Wang, L. S.; Dai, J.; Wang, Z. L.; Jiang, X. S.; Li, S. J.; Li, L.; Sheng, Q. H.; Wu, D. Q.; Li, L.; Zeng, R. Quantitative phosphoproteome profiling of Wnt3a-mediated signaling network: indicating the involvement of ribonucleoside-diphosphate reductase M2 subunit phosphorylation at residue serine 20 in canonical Wnt signal transduction. Mol. Cell. Proteomics 2007, 6 (11), 1952-1967.
-
(2007)
Mol. Cell. Proteomics
, vol.6
, Issue.11
, pp. 1952-1967
-
-
Tang, L.Y.1
Deng, N.2
Wang, L.S.3
Dai, J.4
Wang, Z.L.5
Jiang, X.S.6
Li, S.J.7
Li, L.8
Sheng, Q.H.9
Wu, D.Q.10
Li, L.11
Zeng, R.12
-
11
-
-
0033565503
-
Immobilized gallium(III) affinity chromatography of phosphopeptides
-
Posewitz, M. C.; Tempst, P. Immobilized gallium(III) affinity chromatography of phosphopeptides. Anal. Chem. 1999, 71, 2883-2892.
-
(1999)
Anal. Chem
, vol.71
, pp. 2883-2892
-
-
Posewitz, M.C.1
Tempst, P.2
-
12
-
-
11444263845
-
Largescale analysis of in vivo phosphorylated membrane proteins by immobilized metal ion affinity chromatography and mass spectrometry
-
Nuhse, T. S.; Stensballe, A.; Jensen, O. N.; Peck, S. C. Largescale analysis of in vivo phosphorylated membrane proteins by immobilized metal ion affinity chromatography and mass spectrometry. Mol. Cell. Proteomics 2003, 2, 1234-1243.
-
(2003)
Mol. Cell. Proteomics
, vol.2
, pp. 1234-1243
-
-
Nuhse, T.S.1
Stensballe, A.2
Jensen, O.N.3
Peck, S.C.4
-
13
-
-
3242688830
-
Selective isolation at the femtomole level of phosphopeptides from proteolytic digests using 2D-NanoLC-ESI-MS/MS and titanium oxide precolumns
-
Pinkse, M. W.; Uitto, P. M.; Hilhorst, M. J.; Ooms, B.; Heck, A. J. Selective isolation at the femtomole level of phosphopeptides from proteolytic digests using 2D-NanoLC-ESI-MS/MS and titanium oxide precolumns. Anal. Chem. 2004, 76 (14), 3935-3943.
-
(2004)
Anal. Chem
, vol.76
, Issue.14
, pp. 3935-3943
-
-
Pinkse, M.W.1
Uitto, P.M.2
Hilhorst, M.J.3
Ooms, B.4
Heck, A.J.5
-
14
-
-
24944519450
-
Highly selective enrichment of phosphorylated peptides from peptide mixtures using titanium dioxide microcolumns
-
Larsen, M. R.; Thingholm, T. E.; Jensen, O. N.; Roepstorff, P.; Jorgensen, T. J. Highly selective enrichment of phosphorylated peptides from peptide mixtures using titanium dioxide microcolumns. Mol. Cell. Proteomics 2005, 4 (7), 873-886.
-
(2005)
Mol. Cell. Proteomics
, vol.4
, Issue.7
, pp. 873-886
-
-
Larsen, M.R.1
Thingholm, T.E.2
Jensen, O.N.3
Roepstorff, P.4
Jorgensen, T.J.5
-
15
-
-
38049035341
-
Global profiling of phosphopeptides by titania affinity enrichment
-
Wu, J.; Shakey, Q.; Liu, W.; Schuller, A.; Follettie, M. T. Global profiling of phosphopeptides by titania affinity enrichment. J. Proteome Res. 2007, 6 (12), 4684-4689.
-
(2007)
J. Proteome Res
, vol.6
, Issue.12
, pp. 4684-4689
-
-
Wu, J.1
Shakey, Q.2
Liu, W.3
Schuller, A.4
Follettie, M.T.5
-
16
-
-
0035072715
-
A systematic approach to the analysis of protein phosphorylation
-
Zhou, H.; Watts, J. D.; Aebersold, R. A systematic approach to the analysis of protein phosphorylation. Nat. Biotechnol. 2001, 19 (4), 375-378.
-
(2001)
Nat. Biotechnol
, vol.19
, Issue.4
, pp. 375-378
-
-
Zhou, H.1
Watts, J.D.2
Aebersold, R.3
-
17
-
-
42649139982
-
SIMAC (sequential elution from IMAC), a phosphoproteomic strategy for the rapid separation of mono-phosphorylated from multiply phosphorylated peptides
-
Thingholm, T. E.; Jensen, O. N.; Robinson, P. J.; Larsen, M. R. SIMAC (sequential elution from IMAC), a phosphoproteomic strategy for the rapid separation of mono-phosphorylated from multiply phosphorylated peptides. Mol. Cell. Proteomics 2008, 7 (4), 661-671.
-
(2008)
Mol. Cell. Proteomics
, vol.7
, Issue.4
, pp. 661-671
-
-
Thingholm, T.E.1
Jensen, O.N.2
Robinson, P.J.3
Larsen, M.R.4
-
18
-
-
36749031608
-
Highly efficient phosphopeptide enrichment by calcium phosphate precipitation combined with subsequent IMAC enrichment
-
Zhang, X.; Ye, J.; Jensen, O. N.; Roepstorff, P. Highly efficient phosphopeptide enrichment by calcium phosphate precipitation combined with subsequent IMAC enrichment. Mol. Cell. Proteomics 2007, 6, 2032-2042.
-
(2007)
Mol. Cell. Proteomics
, vol.6
, pp. 2032-2042
-
-
Zhang, X.1
Ye, J.2
Jensen, O.N.3
Roepstorff, P.4
-
19
-
-
4344574540
-
Large-scale characterization of HeLa cell nuclear phosphoproteins
-
Beausoleil, S. A.; Jedrychowski, M.; Schwartz, D.; Elias, J. E.; Villén, J.; Li, J.; Cohn, M. A.; Cantley, L. C.; Gygi, S. P. Large-scale characterization of HeLa cell nuclear phosphoproteins. Proc. Natl. Acad. Sci. U.S.A. 2004, 101, 12130-12135.
-
(2004)
Proc. Natl. Acad. Sci. U.S.A
, vol.101
, pp. 12130-12135
-
-
Beausoleil, S.A.1
Jedrychowski, M.2
Schwartz, D.3
Elias, J.E.4
Villén, J.5
Li, J.6
Cohn, M.A.7
Cantley, L.C.8
Gygi, S.P.9
-
20
-
-
33750456519
-
Global, in vivo, and site-specific phosphorylation dynamics in signaling networks
-
Olsen, J. V.; Blagoev, B.; Gnad, F.; Macek, B.; Kumar, C.; Mortensen, P.; Mann, M. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. Cell 2006, 127, 635-648.
-
(2006)
Cell
, vol.127
, pp. 635-648
-
-
Olsen, J.V.1
Blagoev, B.2
Gnad, F.3
Macek, B.4
Kumar, C.5
Mortensen, P.6
Mann, M.7
-
21
-
-
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. 2008, 3 (10), 1630-1638.
-
(2008)
Nat. Protoc
, vol.3
, Issue.10
, pp. 1630-1638
-
-
Villén, J.1
Gygi, S.P.2
-
22
-
-
40549130385
-
Large-scale phosphoproteome analysis of human liver tissue by enrichment and fractionation of phosphopeptides with strong anion exchange chromatography
-
Han, G.; Ye, M.; Zhou, H.; Jiang, X.; Feng, S.; Jiang, X.; Tian, R.; Wan, D.; Zou, H.; Gu, J. Large-scale phosphoproteome analysis of human liver tissue by enrichment and fractionation of phosphopeptides with strong anion exchange chromatography. Proteomics 2008, 8 (7), 1346-1361.
-
(2008)
Proteomics
, vol.8
, Issue.7
, pp. 1346-1361
-
-
Han, G.1
Ye, M.2
Zhou, H.3
Jiang, X.4
Feng, S.5
Jiang, X.6
Tian, R.7
Wan, D.8
Zou, H.9
Gu, J.10
-
23
-
-
33846610475
-
Protein phosphorylation and expression profiling by Yin-yang multidimensional liquid chromatography (Yin-yang MDLC) mass spectrometry
-
Dai, J.; Jin, W. H.; Sheng, Q. H.; Shieh, C. H.; Wu, J. R.; Zeng, R. Protein phosphorylation and expression profiling by Yin-yang multidimensional liquid chromatography (Yin-yang MDLC) mass spectrometry. J. Proteome Res. 2007, 6 (1), 250-262.
-
(2007)
J. Proteome Res
, vol.6
, Issue.1
, pp. 250-262
-
-
Dai, J.1
Jin, W.H.2
Sheng, Q.H.3
Shieh, C.H.4
Wu, J.R.5
Zeng, R.6
-
24
-
-
61349179532
-
Phosphorylation analysis of primary human T lymphocytes using sequential IMAC and titanium oxide enrichment
-
Carrascal, M.; Ovelleiro, D.; Casas, V.; Gay, M.; Abian, J. Phosphorylation analysis of primary human T lymphocytes using sequential IMAC and titanium oxide enrichment. J. Proteome Res. 2008, 7 (12), 5167-5176.
-
(2008)
J. Proteome Res
, vol.7
, Issue.12
, pp. 5167-5176
-
-
Carrascal, M.1
Ovelleiro, D.2
Casas, V.3
Gay, M.4
Abian, J.5
-
25
-
-
43849091451
-
Hydrophilic-interaction chromatography reduces the complexity of the phosphoproteome and improves global phosphopeptide isolation and detection
-
McNulty, D. E.; Annan, R. S. Hydrophilic-interaction chromatography reduces the complexity of the phosphoproteome and improves global phosphopeptide isolation and detection. Mol. Cell. Proteomics 2008, 7 (5), 971-980.
-
(2008)
Mol. Cell. Proteomics
, vol.7
, Issue.5
, pp. 971-980
-
-
McNulty, D.E.1
Annan, R.S.2
-
26
-
-
49449085504
-
A quantitative atlas of mitotic phosphorylation
-
Dephoure, N.; Zhou, C.; Villén, J.; Beausoleil, S. A.; Bakalarski, C. E.; Elledge, S. J.; Gygi, S. P. A quantitative atlas of mitotic phosphorylation. Proc. Natl. Acad. Sci. U.S.A. 2008, 105 (31), 10762-10767.
-
(2008)
Proc. Natl. Acad. Sci. U.S.A
, vol.105
, Issue.31
, pp. 10762-10767
-
-
Dephoure, N.1
Zhou, C.2
Villén, J.3
Beausoleil, S.A.4
Bakalarski, C.E.5
Elledge, S.J.6
Gygi, S.P.7
-
27
-
-
44449132255
-
Phosphoproteome analysis of fission yeast
-
Wilson-Grady, J. T.; Villén, J.; Gygi, S. P. Phosphoproteome analysis of fission yeast. J. Proteome Res. 2008, 7 (3), 1088-1097.
-
(2008)
J. Proteome Res
, vol.7
, Issue.3
, pp. 1088-1097
-
-
Wilson-Grady, J.T.1
Villén, J.2
Gygi, S.P.3
-
28
-
-
35148898785
-
Signaling pathways initiated by beta-hydroxy-beta-methylbutyrate to attenuate the depression of protein synthesis in skeletal muscle in response to cachectic stimuli
-
Eley, H. L.; Russell, S. T.; Baxter, J. H.; Mukerji, P.; Tisdale, M. J. Signaling pathways initiated by beta-hydroxy-beta-methylbutyrate to attenuate the depression of protein synthesis in skeletal muscle in response to cachectic stimuli. Am. J. Physiol.: Endocrinol. Metab. 2007, 293 (4), 923-931.
-
(2007)
Am. J. Physiol.: Endocrinol. Metab
, vol.293
, Issue.4
, pp. 923-931
-
-
Eley, H.L.1
Russell, S.T.2
Baxter, J.H.3
Mukerji, P.4
Tisdale, M.J.5
-
29
-
-
34250834362
-
A diacylglycerol kinase inhibitor, R59022, stimulates glucose transport through a MKK3/6-p38 signaling pathway in skeletal muscle cells
-
Takahashi, N.; Nagamine, M.; Tanno, S.; Motomura, W.; Kohgo, Y.; Okumura, T. A diacylglycerol kinase inhibitor, R59022, stimulates glucose transport through a MKK3/6-p38 signaling pathway in skeletal muscle cells. Biochem. Biophys. Res. Commun. 2007, 360 (1), 244-250.
-
(2007)
Biochem. Biophys. Res. Commun
, vol.360
, Issue.1
, pp. 244-250
-
-
Takahashi, N.1
Nagamine, M.2
Tanno, S.3
Motomura, W.4
Kohgo, Y.5
Okumura, T.6
-
30
-
-
63049089189
-
Preliminary quantitative profile of differential protein expression between rat L6 myoblasts and myotubes by stable isotope labeling with amino acids in cell culture
-
Cui, Z.; Chen, X.; Lu, B.; Park, S.K,; Xu, T.; Xie, Z.; Xue, P.; Hou, J.; Hang, H.; Yates, J. R., III; Yang, F. Preliminary quantitative profile of differential protein expression between rat L6 myoblasts and myotubes by stable isotope labeling with amino acids in cell culture. Proteomics 2009, 9, 1274-1292.
-
(2009)
Proteomics
, vol.9
, pp. 1274-1292
-
-
Cui, Z.1
Chen, X.2
Lu, B.3
Park, S.K.4
Xu, T.5
Xie, Z.6
Xue, P.7
Hou, J.8
Hang, H.9
Yates III, J.R.10
Yang, F.11
-
31
-
-
10944252091
-
Comparative proteomes of the proliferating C(2)C(12) myoblasts and fully differentiated myotubes reveal the complexity of the skeletal muscle differentiation program
-
Tannu, N. S.; Rao, V. K.; Chaudhary, R. M.; Giorgianni, F.; Saeed, A. E.; Gao, Y.; Raghow, R. Comparative proteomes of the proliferating C(2)C(12) myoblasts and fully differentiated myotubes reveal the complexity of the skeletal muscle differentiation program. Mol. Cell. Proteomics 2004, 3, 1065-1082.
-
(2004)
Mol. Cell. Proteomics
, vol.3
, pp. 1065-1082
-
-
Tannu, N.S.1
Rao, V.K.2
Chaudhary, R.M.3
Giorgianni, F.4
Saeed, A.E.5
Gao, Y.6
Raghow, R.7
-
32
-
-
49249124901
-
Phospho-proteomic approach to identify new targets of leucine deprivation in muscle cells
-
Talvas, J.; Obled, A.; Sayd, T.; Chambon, C.; Mordier, S.; Fafournoux, P. Phospho-proteomic approach to identify new targets of leucine deprivation in muscle cells. Anal. Biochem. 2008, 381, 148-150.
-
(2008)
Anal. Biochem
, vol.381
, pp. 148-150
-
-
Talvas, J.1
Obled, A.2
Sayd, T.3
Chambon, C.4
Mordier, S.5
Fafournoux, P.6
-
33
-
-
51249091494
-
Phosphoproteomic analysis of aged skeletal muscle
-
Gannon, J.; Staunton, L.; O'Connell, K.; Doran, P.; Ohlendieck, K. Phosphoproteomic analysis of aged skeletal muscle. Int. J. Mol. Med. 2008, 22, 33-42.
-
(2008)
Int. J. Mol. Med
, vol.22
, pp. 33-42
-
-
Gannon, J.1
Staunton, L.2
O'Connell, K.3
Doran, P.4
Ohlendieck, K.5
-
34
-
-
70449436408
-
In vivo phosphoproteome of human skeletal muscle revealed by phosphopeptide enrichment and HPLC-ESI-MS/MS
-
Højlund, K.; Bowen, B. P.; Hwang, H.; Flynn, C. R.; Madireddy, L.; Geetha, T.; Langlais, P.; Meyer, C.; Mandarino, L. J.; Yi, Z. In vivo phosphoproteome of human skeletal muscle revealed by phosphopeptide enrichment and HPLC-ESI-MS/MS. J. Proteome Res. 2009, 8, 4954-4965.
-
(2009)
J. Proteome Res
, vol.8
, pp. 4954-4965
-
-
Højlund, K.1
Bowen, B.P.2
Hwang, H.3
Flynn, C.R.4
Madireddy, L.5
Geetha, T.6
Langlais, P.7
Meyer, C.8
Mandarino, L.J.9
Yi, Z.10
-
35
-
-
0035106351
-
Large-scale analysis of the yeast proteome by multidimensional protein identification technology
-
Washburn, M. P.; Wolters, D.; Yates, J. R., III. Large-scale analysis of the yeast proteome by multidimensional protein identification technology. Nat. Biotechnol. 2001, 19, 242-247.
-
(2001)
Nat. Biotechnol
, vol.19
, pp. 242-247
-
-
Washburn, M.P.1
Wolters, D.2
Yates III, J.R.3
-
36
-
-
38049035341
-
Global profiling of phosphopeptides by titania affinity enrichment
-
Wu, J.; Shakey, Q.; Liu, W.; Schuller, A.; Follettie, M. T. Global profiling of phosphopeptides by titania affinity enrichment. J. Proteome Res. 2007, 6 (12), 4684-4689.
-
(2007)
J. Proteome Res
, vol.6
, Issue.12
, pp. 4684-4689
-
-
Wu, J.1
Shakey, Q.2
Liu, W.3
Schuller, A.4
Follettie, M.T.5
-
37
-
-
84934435370
-
Analysis of organelles by on-line two-dimensional liquid chromatography-tandem mass spectrometry
-
Romijn, E. P.; Yates, J. R., III. Analysis of organelles by on-line two-dimensional liquid chromatography-tandem mass spectrometry. Methods Mol. Biol. 2008, 432, 1-16.
-
(2008)
Methods Mol. Biol
, vol.432
, pp. 1-16
-
-
Romijn, E.P.1
Yates III, J.R.2
-
38
-
-
0000857494
-
An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database
-
Eng, J. K.; McCormack, A.; 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. 1994, 5, 976-989.
-
(1994)
J. Am. Soc. Mass Spectrom
, vol.5
, pp. 976-989
-
-
Eng, J.K.1
McCormack, A.2
Yates III, J.R.3
-
39
-
-
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 2007, 4 (3), 207-214.
-
(2007)
Nat. Methods
, vol.4
, Issue.3
, pp. 207-214
-
-
Elias, J.E.1
Gygi, S.P.2
-
40
-
-
34948851348
-
An automated platform for analysis of phosphoproteomic datasets: Application to kidney collecting duct phosphoproteins
-
Hoffert, J. D.; Wang, G.; Pisitkun, T.; Shen, R. F.; Knepper, M. A. An automated platform for analysis of phosphoproteomic datasets: application to kidney collecting duct phosphoproteins. J. Proteome Res. 2007, 7 (9), 3501-3508.
-
(2007)
J. Proteome Res
, vol.7
, Issue.9
, pp. 3501-3508
-
-
Hoffert, J.D.1
Wang, G.2
Pisitkun, T.3
Shen, R.F.4
Knepper, M.A.5
-
41
-
-
0037108887
-
Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search
-
Keller, A.; Nesvizhskii, A. I.; Kolker, E.; Aebersold, R. Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search. Anal. Chem. 2002, 74 (20), 5383-5392.
-
(2002)
Anal. Chem
, vol.74
, Issue.20
, pp. 5383-5392
-
-
Keller, A.1
Nesvizhskii, A.I.2
Kolker, E.3
Aebersold, R.4
-
42
-
-
52749096518
-
-
Xu, H.; Yang, L.; Freitas, M. A. A robust linear regression based algorithm for automated evaluation of peptide identifications from shotgun proteomics by use of reversed-phase liquid chromatography retention time. BMC Bioinf. 2008, 9, 347.
-
Xu, H.; Yang, L.; Freitas, M. A. A robust linear regression based algorithm for automated evaluation of peptide identifications from shotgun proteomics by use of reversed-phase liquid chromatography retention time. BMC Bioinf. 2008, 9, 347.
-
-
-
-
43
-
-
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. U.S.A. 2007, 104 (5), 1488-1493.
-
(2007)
Proc. Natl. Acad. Sci. U.S.A
, vol.104
, Issue.5
, pp. 1488-1493
-
-
Villén, J.1
Beausoleil, S.A.2
Gerber, S.A.3
Gygi, S.P.4
-
44
-
-
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. 2006, 24 (10), 1285-1292.
-
(2006)
Nat. Biotechnol
, vol.24
, Issue.10
, pp. 1285-1292
-
-
Beausoleil, S.A.1
Villén, J.2
Gerber, S.A.3
Rush, J.4
Gygi, S.P.5
-
45
-
-
27944499451
-
An iterative statistical approach to the identification of protein phosphorylation motifs from large-scale data sets
-
Schwartz, D.; Gygi, S. P. An iterative statistical approach to the identification of protein phosphorylation motifs from large-scale data sets. Nat. Biotechnol. 2005, 23 (11), 1391-1398.
-
(2005)
Nat. Biotechnol
, vol.23
, Issue.11
, pp. 1391-1398
-
-
Schwartz, D.1
Gygi, S.P.2
-
46
-
-
44449132255
-
Phosphoproteome analysis of fission yeast
-
Wilson-Grady, J. T.; Villén, J.; Gygi, S. P. Phosphoproteome analysis of fission yeast. J. Proteome Res. 2008, 7 (13), 1088-1097.
-
(2008)
J. Proteome Res
, vol.7
, Issue.13
, pp. 1088-1097
-
-
Wilson-Grady, J.T.1
Villén, J.2
Gygi, S.P.3
-
47
-
-
34250743173
-
Systematic discovery of in vivo phosphorylation networks
-
Linding, R.; Jensen, L. J.; Ostheimer, G. J.; van Vugt, M. A.; Jørgensen, C.; Miron, I. M.; Diella, F.; Colwill, K.; Taylor, L.; Elder, K.; Metalnikov, P.; Nguyen, V.; Pasculescu, A.; Jin, J.; Park, J. G.; Samson, L. D.; Woodgett, J. R.; Russell, R. B.; Bork, P.; Yaffe, M. B.; Pawson, T. Systematic discovery of in vivo phosphorylation networks. Cell 2007, 129 (7), 1415-1426.
-
(2007)
Cell
, vol.129
, Issue.7
, pp. 1415-1426
-
-
Linding, R.1
Jensen, L.J.2
Ostheimer, G.J.3
van Vugt, M.A.4
Jørgensen, C.5
Miron, I.M.6
Diella, F.7
Colwill, K.8
Taylor, L.9
Elder, K.10
Metalnikov, P.11
Nguyen, V.12
Pasculescu, A.13
Jin, J.14
Park, J.G.15
Samson, L.D.16
Woodgett, J.R.17
Russell, R.B.18
Bork, P.19
Yaffe, M.B.20
Pawson, T.21
more..
-
48
-
-
38549109487
-
-
Linding, R.; Jensen, L. J.; Pasculescu, A.; Olhovsky, M.; Colwill, K.; Bork, P.; Yaffe, M. B.; Pawson, T. NetworKIN: a resource for exploring cellular phosphorylation networks. Nucleic Acids Res. 2008, (Database issue), D695-699.
-
Linding, R.; Jensen, L. J.; Pasculescu, A.; Olhovsky, M.; Colwill, K.; Bork, P.; Yaffe, M. B.; Pawson, T. NetworKIN: a resource for exploring cellular phosphorylation networks. Nucleic Acids Res. 2008, (Database issue), D695-699.
-
-
-
-
49
-
-
70349526350
-
Comparative analysis reveals conserved protein phosphorylation networks implicated in multiple diseases
-
ra39
-
Tan, C. S.; Bodenmiller, B.; Pasculescu, A.; Jovanovic, M.; Hengartner, M. O.; Jørgensen, C.; Bader, G. D.; Aebersold, R.; Pawson, T.; Linding, R. Comparative analysis reveals conserved protein phosphorylation networks implicated in multiple diseases. Sci. Signal. 2009, 2 (81)), ra39.
-
(2009)
Sci. Signal
, vol.2
, Issue.81
-
-
Tan, C.S.1
Bodenmiller, B.2
Pasculescu, A.3
Jovanovic, M.4
Hengartner, M.O.5
Jørgensen, C.6
Bader, G.D.7
Aebersold, R.8
Pawson, T.9
Linding, R.10
-
50
-
-
85142149057
-
-
Maere, S.; Heymans, K.; Kuiper, M. BiNGO: a Cytoscape plugin to assess overrepresentation of Gene Ontology categories in biological networks. Bioinformatics 2005, 21, 3448-3449.
-
Maere, S.; Heymans, K.; Kuiper, M. BiNGO: a Cytoscape plugin to assess overrepresentation of Gene Ontology categories in biological networks. Bioinformatics 2005, 21, 3448-3449.
-
-
-
-
51
-
-
0000109995
-
Transforming gene product of Rous sarcoma virus phosphorylates tyrosine
-
Hunter, T.; Sefton, B. M. Transforming gene product of Rous sarcoma virus phosphorylates tyrosine. Proc. Natl. Acad. Sci. U.S.A. 1980, 77, 1311-1315.
-
(1980)
Proc. Natl. Acad. Sci. U.S.A
, vol.77
, pp. 1311-1315
-
-
Hunter, T.1
Sefton, B.M.2
-
52
-
-
5744223586
-
An improved model for prediction of retention times of tryptic peptides in ion pair reversed-phase HPLC
-
Krokhin, O. V.; Craig, R.; Spicer, V.; Ens, W.; Standing, K. G.; Beavis, R. C.; Wilkins, J. A. An improved model for prediction of retention times of tryptic peptides in ion pair reversed-phase HPLC. Mol. Cell. Proteomics 2004, 3 (9), 908-919.
-
(2004)
Mol. Cell. Proteomics
, vol.3
, Issue.9
, pp. 908-919
-
-
Krokhin, O.V.1
Craig, R.2
Spicer, V.3
Ens, W.4
Standing, K.G.5
Beavis, R.C.6
Wilkins, J.A.7
-
53
-
-
33748515682
-
Use of peptide retention prediction for protein identification by off-line reversedphase HPLC-MALDI MS/MS
-
Krokhin, O. V.; Ying, S.; Cortens, J. P.; Ghosh, D.; Spicer, V.; Ens, W.; Standing, K. G.; Beavis, R. C.; Wilkins, J. A. Use of peptide retention prediction for protein identification by off-line reversedphase HPLC-MALDI MS/MS. Anal. Chem. 2006, 78, 6265-6269.
-
(2006)
Anal. Chem
, vol.78
, pp. 6265-6269
-
-
Krokhin, O.V.1
Ying, S.2
Cortens, J.P.3
Ghosh, D.4
Spicer, V.5
Ens, W.6
Standing, K.G.7
Beavis, R.C.8
Wilkins, J.A.9
-
54
-
-
0026040191
-
Consensus sequences as substrate specificity determinants for protein kinases and protein phosphatases
-
Kennelly, P. J.; Krebs, E. G. Consensus sequences as substrate specificity determinants for protein kinases and protein phosphatases. J. Biol. Chem. 1991, 266, 15555-15558.
-
(1991)
J. Biol. Chem
, vol.266
, pp. 15555-15558
-
-
Kennelly, P.J.1
Krebs, E.G.2
-
55
-
-
33947103658
-
A curated compendium of phosphorylation motifs
-
Amanchy, R.; Periaswamy, B.; Mathivanan, S.; Reddy, R.; Tattikota, S. G.; Pandey, A. A curated compendium of phosphorylation motifs. Nat. Biotechnol. 2007, 25 (3), 285-286.
-
(2007)
Nat. Biotechnol
, vol.25
, Issue.3
, pp. 285-286
-
-
Amanchy, R.1
Periaswamy, B.2
Mathivanan, S.3
Reddy, R.4
Tattikota, S.G.5
Pandey, A.6
-
56
-
-
0027437376
-
Pleiotropic insulin signals are engaged by multisite phosphorylation of IRS-1
-
Sun, X. J.; Crimmins, D. L.; Myers, M. G., Jr.; Miralpeix, M.; White, M. F. Pleiotropic insulin signals are engaged by multisite phosphorylation of IRS-1. Mol. Cell. Biol. 1993, 13, 7418-7428.
-
(1993)
Mol. Cell. Biol
, vol.13
, pp. 7418-7428
-
-
Sun, X.J.1
Crimmins, D.L.2
Myers Jr., M.G.3
Miralpeix, M.4
White, M.F.5
-
57
-
-
55849150923
-
Proteomics and phosphoproteomics for the mapping of cellular signalling networks
-
Preisinger, C.; von Kriegsheim, A; Matallanas, D.; Kolch, W. Proteomics and phosphoproteomics for the mapping of cellular signalling networks. Proteomics 2008, 8 (21), 4402-4415.
-
(2008)
Proteomics
, vol.8
, Issue.21
, pp. 4402-4415
-
-
Preisinger, C.1
von Kriegsheim, A.2
Matallanas, D.3
Kolch, W.4
-
58
-
-
0033982936
-
KEGG: Kyoto encyclopedia of genes and genomes
-
Kanehisa, M.; Goto, S. KEGG: kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 2000, 28, 27-30.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 27-30
-
-
Kanehisa, M.1
Goto, S.2
-
59
-
-
38549126643
-
KEGG for linking genomes to life and the environment
-
Kanehisa, M.; Araki, M.; Goto, S.; Hattori, M.; Hirakawa, M.; Itoh, M.; Katayama, T.; Kawashima, S.; Okuda, S.; Tokimatsu, T.; Yamanishi, Y. KEGG for linking genomes to life and the environment. Nucleic Acids Res. 2008, 36, D480-484.
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Kanehisa, M.1
Araki, M.2
Goto, S.3
Hattori, M.4
Hirakawa, M.5
Itoh, M.6
Katayama, T.7
Kawashima, S.8
Okuda, S.9
Tokimatsu, T.10
Yamanishi, Y.11
-
60
-
-
33745183356
-
The p38 MAPK signaling pathway: A major regulator of skeletal muscle development
-
Keren, A.; Tamir, Y.; Bengal, E. The p38 MAPK signaling pathway: a major regulator of skeletal muscle development. Mol. Cell. Endocrinol. 2006, 252 (1-2), 224-230.
-
(2006)
Mol. Cell. Endocrinol
, vol.252
, Issue.1-2
, pp. 224-230
-
-
Keren, A.1
Tamir, Y.2
Bengal, E.3
-
61
-
-
0024364301
-
Insulin-like growth factors (IGF) in muscle development. Expression of IGF-I, the IGF-I receptor, and an IGF binding protein during myoblast differentiation
-
Tollefsen, S. E.; Lajara, R.; McCusker, R. H.; Clemmons, D. R.; Rotwein, P. Insulin-like growth factors (IGF) in muscle development. Expression of IGF-I, the IGF-I receptor, and an IGF binding protein during myoblast differentiation. J. Biol. Chem. 1989, 264 (23), 13810-13807.
-
(1989)
J. Biol. Chem
, vol.264
, Issue.23
, pp. 13810-13807
-
-
Tollefsen, S.E.1
Lajara, R.2
McCusker, R.H.3
Clemmons, D.R.4
Rotwein, P.5
-
62
-
-
0013968228
-
Myogenesis: Fusion, myosin synthesis, and the mitotic cycle
-
Okazaki, K.; Holtzer, H. Myogenesis: fusion, myosin synthesis, and the mitotic cycle. Proc. Natl. Acad. Sci. U.S.A. 1966, 56 (5), 1484-1490.
-
(1966)
Proc. Natl. Acad. Sci. U.S.A
, vol.56
, Issue.5
, pp. 1484-1490
-
-
Okazaki, K.1
Holtzer, H.2
-
63
-
-
4444229881
-
The adaptor protein Grb14 regulates the localization of 3-phosphoinositide dependent kinase-1 (PDK-1)
-
King, C. C.; Newton, A. C. The adaptor protein Grb14 regulates the localization of 3-phosphoinositide dependent kinase-1 (PDK-1). J. Biol. Chem. 2004, 279 (36), 37518-37527.
-
(2004)
J. Biol. Chem
, vol.279
, Issue.36
, pp. 37518-37527
-
-
King, C.C.1
Newton, A.C.2
-
64
-
-
0033560707
-
Activation of serum- and glucocorticoi- dregulated protein kinase by agonists that activate phosphatidylinositide 3-kinase is mediated by 3-phosphoinositide-dependent protein kinase-1 (PDK1) and PDK2
-
Kobayashi, T.; Cohen, P. Activation of serum- and glucocorticoi- dregulated protein kinase by agonists that activate phosphatidylinositide 3-kinase is mediated by 3-phosphoinositide-dependent protein kinase-1 (PDK1) and PDK2. Biochem. J. 1999, 339 (2), 319-328.
-
(1999)
Biochem. J
, vol.339
, Issue.2
, pp. 319-328
-
-
Kobayashi, T.1
Cohen, P.2
-
65
-
-
0033199841
-
Phosphorylation of Ser-241 is essential for the activity of 3-phosphoinositide-dependent protein kinase-1: Identification of five sites of phosphorylation in vivo
-
Casamayor, A.; Morrice, N. A.; Alessi, D. R. Phosphorylation of Ser-241 is essential for the activity of 3-phosphoinositide-dependent protein kinase-1: identification of five sites of phosphorylation in vivo. Biochem. J. 1999, 342 (2), 287-292.
-
(1999)
Biochem. J
, vol.342
, Issue.2
, pp. 287-292
-
-
Casamayor, A.1
Morrice, N.A.2
Alessi, D.R.3
-
66
-
-
0037053364
-
Substitution of the autophosphorylation site Thr516 with a negatively charged residue confers constitutive activity to mouse 3-phosphoinositide- dependent protein kinase-1 in cells
-
Wick, M. J.; Wick, K. R.; Chen, H.; He, H.; Dong, L. Q.; Quon, M. J.; Liu, F. Substitution of the autophosphorylation site Thr516 with a negatively charged residue confers constitutive activity to mouse 3-phosphoinositide- dependent protein kinase-1 in cells. J. Biol. Chem. 2002, 277 (19), 16632-16638.
-
(2002)
J. Biol. Chem
, vol.277
, Issue.19
, pp. 16632-16638
-
-
Wick, M.J.1
Wick, K.R.2
Chen, H.3
He, H.4
Dong, L.Q.5
Quon, M.J.6
Liu, F.7
-
67
-
-
4444317558
-
Altered insulin signaling in retinal tissue in diabetic states
-
Kondo, T.; Kahn, C. R. Altered insulin signaling in retinal tissue in diabetic states. J. Biol. Chem. 2004, 279 (36), 37997-38006.
-
(2004)
J. Biol. Chem
, vol.279
, Issue.36
, pp. 37997-38006
-
-
Kondo, T.1
Kahn, C.R.2
-
68
-
-
33744924190
-
Nuclear compartmentalization of FAK and FRNK in cardiac myocytes
-
Yi, X. P.; Zhou, J.; Huber, L.; Qu, J.; Wang, X.; Gerdes, A. M.; Li, F. Nuclear compartmentalization of FAK and FRNK in cardiac myocytes. Am. J. Physiol.: Heart Circ. Physiol. 2006, 290, 2509-2515.
-
(2006)
Am. J. Physiol.: Heart Circ. Physiol
, vol.290
, pp. 2509-2515
-
-
Yi, X.P.1
Zhou, J.2
Huber, L.3
Qu, J.4
Wang, X.5
Gerdes, A.M.6
Li, F.7
-
69
-
-
0038458812
-
Subcellular redistribution of focal adhesion kinase and its related nonkinase in hypertrophic myocardium
-
Yi, X. P.; Wang, X.; Gerdes, A. M.; Li, F. Subcellular redistribution of focal adhesion kinase and its related nonkinase in hypertrophic myocardium. Hypertension 2003, 41 (6), 1317-1323.
-
(2003)
Hypertension
, vol.41
, Issue.6
, pp. 1317-1323
-
-
Yi, X.P.1
Wang, X.2
Gerdes, A.M.3
Li, F.4
-
70
-
-
0037160066
-
Casein kinase 1 regulates connexin-43 gap junction assembly
-
Cooper, C. D.; Lampe, P. D. Casein kinase 1 regulates connexin-43 gap junction assembly. J. Biol. Chem. 2002, 277 (47), 44962-44968.
-
(2002)
J. Biol. Chem
, vol.277
, Issue.47
, pp. 44962-44968
-
-
Cooper, C.D.1
Lampe, P.D.2
-
71
-
-
0842302372
-
Phosphorylation of serine 262 in the gap junction protein connexin-43 regulates DNA synthesis in cellcell contact forming cardiomyocytes
-
Doble, B. W.; Dang, X.; Ping, P.; Fandrich, R. R.; Nickel, B. E.; Jin, Y.; Cattini, P. A.; Kardami, E. Phosphorylation of serine 262 in the gap junction protein connexin-43 regulates DNA synthesis in cellcell contact forming cardiomyocytes. J. Cell Sci. 2004, 117 (Pt 3), 507-514.
-
(2004)
J. Cell Sci
, vol.117
, Issue.PART 3
, pp. 507-514
-
-
Doble, B.W.1
Dang, X.2
Ping, P.3
Fandrich, R.R.4
Nickel, B.E.5
Jin, Y.6
Cattini, P.A.7
Kardami, E.8
-
72
-
-
33644524918
-
Mass spectrometry-based proteomics turns quantitative
-
Ong, S. E.; Mann, M. Mass spectrometry-based proteomics turns quantitative. Nat. Chem. Biol. 2005, 5, 252-262.
-
(2005)
Nat. Chem. Biol
, vol.5
, pp. 252-262
-
-
Ong, S.E.1
Mann, M.2
-
73
-
-
12444345515
-
Tandem mass tags: A novel quantification strategy for comparative analysis of complex protein mixtures by MS/MS
-
Thompson, A.; Schafer, J.; Kuhn, K.; Kienle, S.; Schwarz, J.; Schmidt, G.; Neumann, T.; Johnstone, R.; Mohammed, A. K.; Hamon, C. Tandem mass tags: a novel quantification strategy for comparative analysis of complex protein mixtures by MS/MS. Anal. Chem. 2003, 75 (8), 1895-1904.
-
(2003)
Anal. Chem
, vol.75
, Issue.8
, pp. 1895-1904
-
-
Thompson, A.1
Schafer, J.2
Kuhn, K.3
Kienle, S.4
Schwarz, J.5
Schmidt, G.6
Neumann, T.7
Johnstone, R.8
Mohammed, A.K.9
Hamon, C.10
|