-
1
-
-
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. Proteom.: MCP 2005, 4 (7) 873-86
-
(2005)
Mol. Cell. Proteom.: MCP
, 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
-
2
-
-
84984933087
-
The SCX/IMAC enrichment approach for global phosphorylation analysis by mass spectrometry
-
Villen, J.; Gygi, S. P. The SCX/IMAC enrichment approach for global phosphorylation analysis by mass spectrometry Nature Protocols 2008, 3 (10) 1630-8
-
(2008)
Nature Protocols
, vol.3
, Issue.10
, pp. 1630-1638
-
-
Villen, J.1
Gygi, S.P.2
-
3
-
-
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 (3) 635-48
-
(2006)
Cell
, vol.127
, Issue.3
, 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
-
4
-
-
77951644400
-
Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis
-
Olsen, J. V.; Vermeulen, M.; Santamaria, A.; Kumar, C.; Miller, M. L.; Jensen, L. J.; Gnad, F.; Cox, J.; Jensen, T. S.; Nigg, E. A.; Brunak, S.; Mann, M. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis Science signaling 2010, 3 (104) ra3
-
(2010)
Science Signaling
, vol.3
, Issue.104
, pp. 3
-
-
Olsen, J.V.1
Vermeulen, M.2
Santamaria, A.3
Kumar, C.4
Miller, M.L.5
Jensen, L.J.6
Gnad, F.7
Cox, J.8
Jensen, T.S.9
Nigg, E.A.10
Brunak, S.11
Mann, M.12
-
5
-
-
79952752375
-
System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation
-
Rigbolt, K. T.; Prokhorova, T. A.; Akimov, V.; Henningsen, J.; Johansen, P. T.; Kratchmarova, I.; Kassem, M.; Mann, M.; Olsen, J. V.; Blagoev, B. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation Sci. Signaling 2011, 4 (164) rs3
-
(2011)
Sci. Signaling
, vol.4
, Issue.164
, pp. 3
-
-
Rigbolt, K.T.1
Prokhorova, T.A.2
Akimov, V.3
Henningsen, J.4
Johansen, P.T.5
Kratchmarova, I.6
Kassem, M.7
Mann, M.8
Olsen, J.V.9
Blagoev, B.10
-
6
-
-
72149101924
-
Cell-specific information processing in segregating populations of Eph receptor ephrin-expressing cells
-
Jorgensen, C.; Sherman, A.; Chen, G. I.; Pasculescu, A.; Poliakov, A.; Hsiung, M.; Larsen, B.; Wilkinson, D. G.; Linding, R.; Pawson, T. Cell-specific information processing in segregating populations of Eph receptor ephrin-expressing cells Science 2009, 326 (5959) 1502-9
-
(2009)
Science
, vol.326
, Issue.5959
, pp. 1502-1509
-
-
Jorgensen, C.1
Sherman, A.2
Chen, G.I.3
Pasculescu, A.4
Poliakov, A.5
Hsiung, M.6
Larsen, B.7
Wilkinson, D.G.8
Linding, R.9
Pawson, T.10
-
7
-
-
34249947699
-
ATM and ATR substrate analysis reveals extensive protein networks responsive to DNA damage
-
Matsuoka, S.; Ballif, B. A.; Smogorzewska, A.; McDonald, E. R., 3rd; Hurov, K. E.; Luo, J.; Bakalarski, C. E.; Zhao, Z.; Solimini, N.; Lerenthal, Y.; Shiloh, Y.; Gygi, S. P.; Elledge, S. J. ATM and ATR substrate analysis reveals extensive protein networks responsive to DNA damage Science 2007, 316 (5828) 1160-6
-
(2007)
Science
, vol.316
, Issue.5828
, pp. 1160-1166
-
-
Matsuoka, S.1
Ballif, B.A.2
Smogorzewska, A.3
McDonald III, E.R.4
Hurov, K.E.5
Luo, J.6
Bakalarski, C.E.7
Zhao, Z.8
Solimini, N.9
Lerenthal, Y.10
Shiloh, Y.11
Gygi, S.P.12
Elledge, S.J.13
-
8
-
-
78650632764
-
Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast
-
Bodenmiller, B.; Wanka, S.; Kraft, C.; Urban, J.; Campbell, D.; Pedrioli, P. G.; Gerrits, B.; Picotti, P.; Lam, H.; Vitek, O.; Brusniak, M. Y.; Roschitzki, B.; Zhang, C.; Shokat, K. M.; Schlapbach, R.; Colman-Lerner, A.; Nolan, G. P.; Nesvizhskii, A. I.; Peter, M.; Loewith, R.; von Mering, C.; Aebersold, R. Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast Sci. Signaling 2010, 3 (153) rs4
-
(2010)
Sci. Signaling
, vol.3
, Issue.153
, pp. 4
-
-
Bodenmiller, B.1
Wanka, S.2
Kraft, C.3
Urban, J.4
Campbell, D.5
Pedrioli, P.G.6
Gerrits, B.7
Picotti, P.8
Lam, H.9
Vitek, O.10
Brusniak, M.Y.11
Roschitzki, B.12
Zhang, C.13
Shokat, K.M.14
Schlapbach, R.15
Colman-Lerner, A.16
Nolan, G.P.17
Nesvizhskii, A.I.18
Peter, M.19
Loewith, R.20
Von Mering, C.21
Aebersold, R.22
more..
-
9
-
-
13244289881
-
Phospho.ELM: A database of experimentally verified phosphorylation sites in eukaryotic proteins
-
Diella, F.; Cameron, S.; Gemund, C.; Linding, R.; Via, A.; Kuster, B.; Sicheritz-Ponten, T.; Blom, N.; Gibson, T. J. Phospho.ELM: a database of experimentally verified phosphorylation sites in eukaryotic proteins BMC Bioinf. 2004, 5, 79
-
(2004)
BMC Bioinf.
, vol.5
, pp. 79
-
-
Diella, F.1
Cameron, S.2
Gemund, C.3
Linding, R.4
Via, A.5
Kuster, B.6
Sicheritz-Ponten, T.7
Blom, N.8
Gibson, T.J.9
-
10
-
-
44149105911
-
PHOSIDA (phosphorylation site database): Management, structural and evolutionary investigation, and prediction of phosphosites
-
Gnad, F.; Ren, S.; Cox, J.; Olsen, J. V.; Macek, B.; Oroshi, M.; Mann, M. PHOSIDA (phosphorylation site database): management, structural and evolutionary investigation, and prediction of phosphosites Genome Biol 2007, 8 (11) R250
-
(2007)
Genome Biol
, vol.8
, Issue.11
, pp. 250
-
-
Gnad, F.1
Ren, S.2
Cox, J.3
Olsen, J.V.4
MacEk, B.5
Oroshi, M.6
Mann, M.7
-
11
-
-
2942598149
-
PhosphoSite: A bioinformatics resource dedicated to physiological protein phosphorylation
-
Hornbeck, P. V.; Chabra, I.; Kornhauser, J. M.; Skrzypek, E.; Zhang, B. PhosphoSite: A bioinformatics resource dedicated to physiological protein phosphorylation Proteomics 2004, 4 (6) 1551-61
-
(2004)
Proteomics
, vol.4
, Issue.6
, pp. 1551-1561
-
-
Hornbeck, P.V.1
Chabra, I.2
Kornhauser, J.M.3
Skrzypek, E.4
Zhang, B.5
-
12
-
-
80051631238
-
GProX, a User-Friendly Platform for Bioinformatics Analysis and Visualization of Quantitative Proteomics Data
-
not supplied.
-
Rigbolt, K. T.; Vanselow, J. T.; Blagoev, B. GProX, a User-Friendly Platform for Bioinformatics Analysis and Visualization of Quantitative Proteomics Data. Mol. Cell. Proteomics: MCP 2011, not supplied.
-
(2011)
Mol. Cell. Proteomics: MCP
-
-
Rigbolt, K.T.1
Vanselow, J.T.2
Blagoev, B.3
-
13
-
-
61449172037
-
Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
-
Huang da, W.; Sherman, B. T.; Lempicki, R. A. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources Nat. Protoc. 2009, 4 (1) 44-57
-
(2009)
Nat. Protoc.
, vol.4
, Issue.1
, pp. 44-57
-
-
Huang Da, W.1
Sherman, B.T.2
Lempicki, R.A.3
-
14
-
-
0042622251
-
Scansite 2.0: Proteome-wide prediction of cell signaling interactions using short sequence motifs
-
Obenauer, J. C.; Cantley, L. C.; Yaffe, M. B. Scansite 2.0: Proteome-wide prediction of cell signaling interactions using short sequence motifs Nucleic Acids Res. 2003, 31 (13) 3635-41
-
(2003)
Nucleic Acids Res.
, vol.31
, Issue.13
, pp. 3635-3641
-
-
Obenauer, J.C.1
Cantley, L.C.2
Yaffe, M.B.3
-
15
-
-
23144434356
-
KinasePhos: A web tool for identifying protein kinase-specific phosphorylation sites
-
(Web Server issue, W226-9).
-
Huang, H. D.; Lee, T. Y.; Tzeng, S. W.; Horng, J. T., KinasePhos: a web tool for identifying protein kinase-specific phosphorylation sites. Nucleic Acids Res. 2005, 33, (Web Server issue, W226-9).
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Huang, H.D.1
Lee, T.Y.2
Tzeng, S.W.3
Horng, J.T.4
-
16
-
-
2942564430
-
Prediction of post-translational glycosylation and phosphorylation of proteins from the amino acid sequence
-
Blom, N.; Sicheritz-Ponten, T.; Gupta, R.; Gammeltoft, S.; Brunak, S. Prediction of post-translational glycosylation and phosphorylation of proteins from the amino acid sequence Proteomics 2004, 4 (6) 1633-49
-
(2004)
Proteomics
, vol.4
, Issue.6
, pp. 1633-1649
-
-
Blom, N.1
Sicheritz-Ponten, T.2
Gupta, R.3
Gammeltoft, S.4
Brunak, S.5
-
17
-
-
55749111058
-
Linear motif atlas for phosphorylation-dependent signaling
-
Miller, M. L.; Jensen, L. J.; Diella, F.; Jorgensen, C.; Tinti, M.; Li, L.; Hsiung, M.; Parker, S. A.; Boordeaux, J.; Sicheritz-Ponten, T.; Olhovsky, M.; Pasculescu, A.; Alexander, J.; Knapp, S.; Blom, N.; Bork, P.; Li, S.; Cesareni, G.; Pawson, T.; Turk, B. E.; Yaffe, M. B.; Brunak, S.; Linding, R. Linear motif atlas for phosphorylation-dependent signaling Sci. Signaling 2008, 1 (35) ra2
-
(2008)
Sci. Signaling
, vol.1
, Issue.35
, pp. 2
-
-
Miller, M.L.1
Jensen, L.J.2
Diella, F.3
Jorgensen, C.4
Tinti, M.5
Li, L.6
Hsiung, M.7
Parker, S.A.8
Boordeaux, J.9
Sicheritz-Ponten, T.10
Olhovsky, M.11
Pasculescu, A.12
Alexander, J.13
Knapp, S.14
Blom, N.15
Bork, P.16
Li, S.17
Cesareni, G.18
Pawson, T.19
Turk, B.E.20
Yaffe, M.B.21
Brunak, S.22
Linding, R.23
more..
-
18
-
-
38549109487
-
NetworKIN: A resource for exploring cellular phosphorylation networks
-
(Database issue, D695-9).
-
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, 36, (Database issue, D695-9).
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Linding, R.1
Jensen, L.J.2
Pasculescu, A.3
Olhovsky, M.4
Colwill, K.5
Bork, P.6
Yaffe, M.B.7
Pawson, T.8
-
19
-
-
13444249988
-
STRING: Known and predicted protein-protein associations, integrated and transferred across organisms
-
(Database issue, D433-7).
-
von Mering, C.; Jensen, L. J.; Snel, B.; Hooper, S. D.; Krupp, M.; Foglierini, M.; Jouffre, N.; Huynen, M. A.; Bork, P., STRING: known and predicted protein-protein associations, integrated and transferred across organisms. Nucleic Acids Res. 2005, 33, (Database issue, D433-7).
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Von Mering, C.1
Jensen, L.J.2
Snel, B.3
Hooper, S.D.4
Krupp, M.5
Foglierini, M.6
Jouffre, N.7
Huynen, M.A.8
Bork, P.9
-
20
-
-
34250743173
-
Systematic discovery of in vivo phosphorylation networks
-
Linding, R.; Jensen, L. J.; Ostheimer, G. J.; van Vugt, M. A.; Jorgensen, 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) 1415-26
-
(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
Jorgensen, 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..
-
21
-
-
84872753527
-
-
R Development Core Team, R: A Language and Environment forStatistical Computing.
-
R Development Core Team, R: A Language and Environment forStatistical Computing, http://www.R-project.org.
-
-
-
-
22
-
-
77953148666
-
Site-specific phosphorylation dynamics of the nuclear proteome during the DNA damage response
-
Bennetzen, M. V.; Larsen, D. H.; Bunkenborg, J.; Bartek, J.; Lukas, J.; Andersen, J. S. Site-specific phosphorylation dynamics of the nuclear proteome during the DNA damage response Mol. Cell. Proteomics: MCP 2010, 9 (6) 1314-23
-
(2010)
Mol. Cell. Proteomics: MCP
, vol.9
, Issue.6
, pp. 1314-1323
-
-
Bennetzen, M.V.1
Larsen, D.H.2
Bunkenborg, J.3
Bartek, J.4
Lukas, J.5
Andersen, J.S.6
-
23
-
-
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 Nature Biotechnol. 2005, 23 (11) 1391-8
-
(2005)
Nature Biotechnol.
, vol.23
, Issue.11
, pp. 1391-1398
-
-
Schwartz, D.1
Gygi, S.P.2
-
24
-
-
0242490780
-
Cytoscape: A software environment for integrated models of biomolecular interaction networks
-
Shannon, P.; Markiel, A.; Ozier, O.; Baliga, N. S.; Wang, J. T.; Ramage, D.; Amin, N.; Schwikowski, B.; Ideker, T. Cytoscape: a software environment for integrated models of biomolecular interaction networks Genome Res. 2003, 13 (11) 2498-504
-
(2003)
Genome Res.
, vol.13
, Issue.11
, pp. 2498-2504
-
-
Shannon, P.1
Markiel, A.2
Ozier, O.3
Baliga, N.S.4
Wang, J.T.5
Ramage, D.6
Amin, N.7
Schwikowski, B.8
Ideker, T.9
|