-
1
-
-
33750533388
-
Physicochemical modelling of cell signalling pathways
-
DOI 10.1038/ncb1497, PII NCB1497
-
Aldridge BB, Burke JM, Lauffenburger DA, Sorger PK (2006) Physicochemical modelling of cell signalling pathways. Nat Cell Biol 8(11):1195-1203, DOI 10.1038/ncb1497, URL http://dx.doi.org/10.1038/ncb1497 (Pubitemid 44660581)
-
(2006)
Nature Cell Biology
, vol.8
, Issue.11
, pp. 1195-1203
-
-
Aldridge, B.B.1
Burke, J.M.2
Lauffenburger, D.A.3
Sorger, P.K.4
-
2
-
-
84889873268
-
-
John Wiley and Sons, Inc., New Jersey, DOI 10.1002/9780470431818.ch2, URL
-
Alexopoulos LG, Saez-Rodriguez J, Espelin CW (2009) High-throughput protein-based technologies and computational models for drug development, efficacy, and toxicity. John Wiley and Sons, Inc., New Jersey, pp 29-52. DOI 10.1002/9780470431818.ch2, URL http://dx.doi.org/10.1002/9780470431818.ch2
-
(2009)
High-throughput Protein-based Technologies and Computational Models for Drug Development, Efficacy, and Toxicity.
, pp. 29-52
-
-
Alexopoulos, L.G.1
Saez-Rodriguez, J.2
Espelin, C.W.3
-
3
-
-
77956554551
-
Networks inferred from biochemical data reveal profound differences in toll-like receptor and inflammatory signaling between normal and transformed hepatocytes
-
DOI 10.1074/mcp.M110.000406, URL,PMID:20460255
-
Alexopoulos LG, Saez-Rodriguez J, Cosgrove BD, Lauffenburger DA, Sorger PK (2010) Networks inferred from biochemical data reveal profound differences in toll-like receptor and inflammatory signaling between normal and transformed hepatocytes. Mol Cell Proteom MCP 9(9):1849-1865, DOI 10.1074/mcp.M110.000406, URL http://www.ncbi.nlm.nih.gov/pubmed/20460255, PMID: 20460255
-
(2010)
Mol Cell Proteom MCP
, vol.9
, Issue.9
, pp. 1849-1865
-
-
Alexopoulos, L.G.1
Saez-Rodriguez, J.2
Cosgrove, B.D.3
Lauffenburger, D.A.4
Sorger, P.K.5
-
4
-
-
33847055114
-
How to infer gene networks from expression profiles
-
DOI 10.1038/msb4100120, URL,PMID:17299415
-
Bansal M, Belcastro V, Ambesi-Impiombato A, di Bernardo D (2007) How to infer gene networks from expression profiles. Mol Syst Biol 3:78, DOI 10.1038/msb4100120, URL http://www.ncbi.nlm.nih.gov/pubmed/17299415, PMID: 17299415
-
(2007)
Mol Syst Biol
, vol.3
, pp. 78
-
-
Bansal, M.1
Belcastro, V.2
Ambesi-Impiombato, A.3
Di Bernardo, D.4
-
5
-
-
67949101916
-
Endocytosis and signalling: A meeting with mathematics
-
DOI 10.1016/j.molonc.2009.05.009, URL,PMID:19596615
-
Birtwistle MR, Kholodenko BN (2009) Endocytosis and signalling: a meeting with mathematics. Mol Oncol 3(4):308-320, DOI 10.1016/j.molonc.2009.05.009, URL http://www.ncbi.nlm.nih.gov/pubmed/19596615, PMID: 19596615
-
(2009)
Mol Oncol
, vol.3
, Issue.4
, pp. 308-320
-
-
Birtwistle, M.R.1
Kholodenko, B.N.2
-
6
-
-
78650632764
-
Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast
-
DOI 10.1126/scisignal.2001182, URL,PMID:21177495
-
Bodenmiller B, Wanka S, Kraft C, Urban J, Campbell D, Pedrioli PG, Gerrits B, Picotti P, Lam H, Vitek O, Brusniak M, Roschitzki B, Zhang C, Shokat KM, Schlapbach R, Colman-Lerner A, Nolan GP, Nesvizhskii AI, Peter M, Loewith R, von Mering C, Aebersold R (2010) Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast. Sci Signal 3(153):rs4, DOI 10.1126/scisignal.2001182, URL http://www.ncbi.nlm.nih.gov/pubmed/21177495, PMID: 21177495
-
(2010)
Sci Signal
, vol.3
, Issue.153
-
-
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.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..
-
7
-
-
23244465153
-
Signaling through receptors and scaffolds: Independent interactions reduce combinatorial complexity
-
DOI 10.1529/biophysj.105.060533
-
Borisov NM, Markevich NI, Hoek JB, Kholodenko BN (2005) Signaling through receptors and scaffolds: independent interactions reduce combinatorial complexity. Biophys J 89(2):951-966, DOI 10.1529/biophysj.105.060533, URL http://www.ncbi.nlm.nih.gov/pubmed/15923229, PMID: 15923229 (Pubitemid 41098981)
-
(2005)
Biophysical Journal
, vol.89
, Issue.2
, pp. 951-966
-
-
Borisov, N.M.1
Markevich, N.I.2
Hoek, J.B.3
Kholodenko, B.N.4
-
8
-
-
77449088218
-
Scoring and validation of tandem MS peptide identification methods
-
DOI 10.1007/978-1-60761-444-9 4, URL, PMID: 20013363
-
Brosch M, Choudhary J (2010) Scoring and validation of tandem MS peptide identification methods. Meth Mol Biol (Clifton, NJ) 604:43-53, DOI 10.1007/978-1-60761-444-9 4, URL http://www.ncbi.nlm.nih.gov/pubmed/20013363, PMID: 20013363
-
(2010)
Meth Mol Biol (Clifton, NJ)
, vol.604
, pp. 43-53
-
-
Brosch, M.1
Choudhary, J.2
-
9
-
-
58549083142
-
Input-output behavior of ErbB signaling pathways as revealed by a mass action model trained against dynamic data
-
DOI 10.1038/msb.2008.74, URL, PMID: 19156131
-
Chen WW, Schoeberl B, Jasper PJ, Niepel M, Nielsen UB, Lauffenburger DA, Sorger PK (2009) Input-output behavior of ErbB signaling pathways as revealed by a mass action model trained against dynamic data. Mol Syst Biol 5:239, DOI 10.1038/msb.2008.74, URL http://www.ncbi.nlm.nih.gov/pubmed/19156131, PMID: 19156131
-
(2009)
Mol Syst Biol
, vol.5
, pp. 239
-
-
Chen, W.W.1
Schoeberl, B.2
Jasper, P.J.3
Niepel, M.4
Nielsen, U.B.5
Lauffenburger, D.A.6
Sorger, P.K.7
-
10
-
-
77952956167
-
Decoding signalling networks by mass spectrometry-based proteomics
-
DOI 10.1038/nrm2900, URL
-
Choudhary C, Mann M (2010) Decoding signalling networks by mass spectrometry-based proteomics. Nat Rev Mol Cell Biol 11(6):427-439, DOI 10.1038/nrm2900, URL http://dx.doi.org/10.1038/nrm2900
-
(2010)
Nat Rev Mol Cell Biol
, vol.11
, Issue.6
, pp. 427-439
-
-
Choudhary, C.1
Mann, M.2
-
11
-
-
77449126570
-
Systems analysis of EGF receptor signaling dynamics with microwestern arrays
-
DOI 10.1038/nmeth.1418, URL
-
Ciaccio MF, Wagner JP, Chuu C, Lauffenburger DA, Jones RB (2010) Systems analysis of EGF receptor signaling dynamics with microwestern arrays. Nat Meth 7(2):148-155, DOI 10.1038/nmeth.1418, URL http://dx.doi.org/10.1038/nmeth.1418
-
(2010)
Nat Meth
, vol.7
, Issue.2
, pp. 148-155
-
-
Ciaccio, M.F.1
Wagner, J.P.2
Chuu, C.3
Lauffenburger, D.A.4
Jones, R.B.5
-
12
-
-
33645238574
-
A domainoriented approach to the reduction of combinatorial complexity in signal transduction networks
-
DOI 10.1186/1471-2105-7-34, URL PMID: 16430778
-
Conzelmann H, Saez-Rodriguez J, Sauter T, Kholodenko BN, Gilles ED (2006) A domainoriented approach to the reduction of combinatorial complexity in signal transduction networks. BMC Bioinformatics 7:34, DOI 10.1186/1471-2105-7- 34, URL http://www.ncbi.nlm.nih.gov/pubmed/16430778, PMID: 16430778
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 34
-
-
Conzelmann, H.1
Saez-Rodriguez, J.2
Sauter, T.3
Kholodenko, B.N.4
Gilles, E.D.5
-
13
-
-
79951523091
-
Biological signalling activity measurements using mass spectrometry
-
DOI 10.1042/BJ20101974, URL
-
Cutillas P, Jorgensen C (2011) Biological signalling activity measurements using mass spectrometry. Biochem J 434(2):189-199, DOI 10.1042/BJ20101974, URL http://www.biochemj.org/bj/434/bj4340189.htm
-
(2011)
Biochem J
, vol.434
, Issue.2
, pp. 189-199
-
-
Cutillas, P.1
Jorgensen, C.2
-
14
-
-
38149083357
-
Rule-based modelling of cellular signalling
-
Danos V, Feret J, Fontana W, Harmer R, Krivine J, Biosystems P, Suprieure EN, Polytechnique E (2007) Rule-based modelling of cellular signalling. Proc of the 18th Int Conf on Concurrency Theory (CONCUR07), Lecture Notes in Computer Science 4703:17-41, URL http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1. 107.228
-
(2007)
Proc of the 18th Int Conf on Concurrency Theory (CONCUR07), Lecture Notes in Computer Science
, vol.4703
, pp. 17-41
-
-
Danos, V.1
Feret, J.2
Fontana, W.3
Harmer, R.4
Krivine, J.5
Biosystems, P.6
Suprieure, E.N.7
Polytechnique, E.8
-
15
-
-
13244289881
-
Phospho.ELM: A database of experimentally verified phosphorylation sites in eukaryotic proteins
-
DOI 10.1186/1471-2105-5-79, URL
-
Diella F, Cameron S, Gemund C, Linding R, Via A, Kuster B, Sicheritz-Ponten T, Blom N, Gibson T (2004) Phospho.ELM: a database of experimentally verified phosphorylation sites in eukaryotic proteins. BMC Bioinformatics 5(1):79, DOI 10.1186/1471-2105-5-79, URL http://www. biomedcentral.com/1471-2105/5/79
-
(2004)
BMC Bioinformatics
, vol.5
, Issue.1
, 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.9
-
17
-
-
65649154507
-
Rule-based modeling of biochemical systems with BioNetGen
-
DOI 10.1007/978-1-59745-525-1 5, URL, PMID: 19399430
-
Faeder JR, BlinovML, HlavacekWS (2009) Rule-based modeling of biochemical systems with BioNetGen. Meth Mol Biol (Clifton, NJ) 500:113-167, DOI 10.1007/978-1-59745-525-1 5, URL http://www.ncbi.nlm.nih.gov/pubmed/19399430, PMID: 19399430
-
(2009)
Meth Mol Biol (Clifton, NJ)
, vol.500
, pp. 113-167
-
-
Faeder, J.R.1
Hlavacekws, B.2
-
18
-
-
66149151035
-
Internal coarse-graining of molecular systems
-
DOI 10.1073/pnas.0809908106, PMID: 19346467
-
Feret J, Danos V, Krivine J, Harmer R, FontanaW(2009) Internal coarse-graining of molecular systems. Proc Natl Acad Sci USA 106(16):6453-6458, DOI 10.1073/pnas.0809908106, URLhttp://www.ncbi.nlm.nih.gov/pubmed/19346467, PMID: 19346467
-
(2009)
Proc Natl Acad Sci USA
, vol.106
, Issue.16
, pp. 6453-6458
-
-
Feret, J.1
Danos, V.2
Krivine, J.3
Fontanaw, H.R.4
-
19
-
-
33847708336
-
Refinement and expansion of signaling pathways: The osmotic response network in yeast
-
DOI 10.1101/gr.5750507
-
Gat-Viks I, Shamir R (2007) Refinement and expansion of signaling pathways: the osmotic response network in yeast. Genome Res 17(3):358-367, DOI 10.1101/gr.5750507, URL http://www.ncbi.nlm.nih.gov/pubmed/17267811, PMID: 17267811 (Pubitemid 46376745)
-
(2007)
Genome Research
, vol.17
, Issue.3
, pp. 358-367
-
-
Gat-Viks, I.1
Shamir, R.2
-
20
-
-
27644496624
-
A compendium of signals and responses triggered by prodeath and prosurvival cytokines
-
DOI 10.1074/mcp.M500158-MCP200
-
Gaudet S, Janes KA, Albeck JG, Pace EA, Lauffenburger DA, Sorger PK (2005) A compendium of signals and responses triggered by prodeath and prosurvival cytokines. Mol Cell Proteom MCP 4(10):1569-1590, DOI 10.1074/mcp.M500158-MCP200, URL http://www.ncbi.nlm.nih.gov/pubmed/16030008, PMID: 16030008 (Pubitemid 41555481)
-
(2005)
Molecular and Cellular Proteomics
, vol.4
, Issue.10
, pp. 1569-1590
-
-
Gaudet, S.1
Janes, K.A.2
Albeck, J.G.3
Pace, E.A.4
Lauffenburger, D.A.5
Sorger, P.K.6
-
21
-
-
44149105911
-
PHOSIDA (phosphorylation site database): Management, structural and evolutionary investigation, and prediction of phosphosites
-
DOI 10.1186/gb-2007-8-11-r250, URL, PMID: 18039369
-
Gnad F, Ren S, Cox J, Olsen JV, Macek B, Oroshi M, Mann M (2007) PHOSIDA (phosphorylation site database): management, structural and evolutionary investigation, and prediction of phosphosites. Genome Biol 8(11):R250, DOI 10.1186/gb-2007-8-11-r250, URL http://www.ncbi.nlm.nih.gov/pubmed/18039369, PMID: 18039369
-
(2007)
Genome Biol
, vol.8
, Issue.11
-
-
Gnad, F.1
Ren, S.2
Cox, J.3
Olsen, J.V.4
MacEk, B.5
Oroshi, M.6
Mann, M.7
-
22
-
-
76649083593
-
Quantitative proteomics by metabolic labeling of model organisms
-
DOI 10.1074/mcp.R900001-MCP200, URL, PMID: 19955089
-
Gouw JW, Krijgsveld J, Heck AJR (2010) Quantitative proteomics by metabolic labeling of model organisms. Mol Cell Proteom MCP 9(1):11-24, DOI 10.1074/mcp.R900001-MCP200, URL http://www.ncbi.nlm.nih.gov/pubmed/19955089, PMID: 19955089
-
(2010)
Mol Cell Proteom MCP
, vol.9
, Issue.1
, pp. 11-24
-
-
Gouw, J.W.1
Krijgsveld, J.2
Ajr, H.3
-
23
-
-
68949206409
-
Applying mass spectrometry-based proteomics to genetics, genomics and network biology
-
DOI 10.1038/nrg2633, URL
-
Gstaiger M, Aebersold R (2009) Applying mass spectrometry-based proteomics to genetics, genomics and network biology. Nat Rev Genet 10(9):617-627, DOI 10.1038/nrg2633, URL http://dx.doi.org/10.1038/nrg2633
-
(2009)
Nat Rev Genet
, vol.10
, Issue.9
, pp. 617-627
-
-
Gstaiger, M.1
Aebersold, R.2
-
24
-
-
79951871488
-
High-content screening: Integrating information
-
DOI 10.1038/nrd2522, URL
-
Harrison C (2008) High-content screening: integrating information. Nat Rev Drug Discov 7(2):121, DOI 10.1038/nrd2522, URL http://dx.doi.org/10.1038/ nrd2522
-
(2008)
Nat Rev Drug Discov
, vol.7
, Issue.2
, pp. 121
-
-
Harrison, C.1
-
25
-
-
33747366698
-
Rules for modeling signal-transduction systems
-
DOI 10.1126/stke.3442006re6, URL, PMID: 16849649
-
Hlavacek WS, Faeder JR, Blinov ML, Posner RG, Hucka M, Fontana W (2006) Rules for modeling signal-transduction systems. Science's STKE: Signal Transduct Knowl Environ 2006(344):re6, DOI 10.1126/stke.3442006re6, URL http://www.ncbi.nlm.nih.gov/pubmed/16849649, PMID: 16849649
-
(2006)
Science's STKE: Signal Transduct Knowl Environ
, vol.2006
, Issue.344
-
-
Hlavacek, W.S.1
Faeder, J.R.2
Blinov, M.L.3
Posner, R.G.4
Hucka, M.5
Fontana, W.6
-
26
-
-
2942598149
-
PhosphoSite: A bioinformatics resource dedicated to physiological protein phosphorylation
-
DOI 10.1002/pmic.200300772
-
Hornbeck PV, Chabra I, Kornhauser JM, Skrzypek E, Zhang B (2004) PhosphoSite: a bioinformatics resource dedicated to physiological protein phosphorylation. Proteomics 4(6):1551-1561, DOI 10.1002/pmic.200300772, URL http://www.ncbi.nlm.nih.gov/pubmed/15174125,PMID: 15174125 (Pubitemid 38738314)
-
(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
-
27
-
-
34547881522
-
Quantitative analysis of EGFRvIII cellular signaling networks reveals a combinatorial therapeutic strategy for glioblastoma
-
DOI 10.1073/pnas.0705158104
-
Huang PH, Mukasa A, Bonavia R, Flynn RA, Brewer ZE, Cavenee WK, Furnari FB, White FM (2007) Quantitative analysis of EGFRvIII cellular signaling networks reveals a combinatorial therapeutic strategy for glioblastoma. Proc Natl Acad Sci USA 104(31):12,867-12,872, DOI 10.1073/pnas.0705158104, URL http://www.ncbi.nlm.nih.gov/pubmed/17646646, PMID: 17646646 (Pubitemid 47255246)
-
(2007)
Proceedings of the National Academy of Sciences of the United States of America
, vol.104
, Issue.31
, pp. 12867-12872
-
-
Huang, P.H.1
Mukasa, A.2
Bonavia, R.3
Flynn, R.A.4
Brewer, Z.E.5
Cavenee, W.K.6
Furnari, F.B.7
White, F.M.8
-
28
-
-
77949773550
-
Towards genome-scale signalling-network reconstructions
-
DOI 10.1038/nrg2750, URL
-
Hyduke DR, Palsson B (2010) Towards genome-scale signalling-network reconstructions. Nat Rev Genet 11(4):297-307, DOI 10.1038/nrg2750, URL http://dx.doi.org/10.1038/nrg2750
-
(2010)
Nat Rev Genet
, vol.11
, Issue.4
, pp. 297-307
-
-
Hyduke, D.R.1
Palsson, B.2
-
29
-
-
28844441230
-
Cell signaling: A systems model of signaling identifies a molecular basis set for cytokine-induced apoptosis
-
DOI 10.1126/science.1116598
-
Janes KA, Albeck JG, Gaudet S, Sorger PK, Lauffenburger DA, Yaffe MB (2005) A systems model of signaling identifies a molecular basis set for cytokine-induced apoptosis. Science (New York, NY) 310(5754):1646-1653, DOI 10.1126/science.1116598, URL http://www.ncbi.nlm.nih.gov/pubmed/16339439, PMID: 16339439 (Pubitemid 41780781)
-
(2005)
Science
, vol.310
, Issue.5754
, pp. 1646-1653
-
-
Janes, K.A.1
Albeck, J.G.2
Gaudet, S.3
Sorger, P.K.4
Lauffenburger, D.A.5
Yaffe, M.B.6
-
30
-
-
33745800293
-
Interpreting the protein language using proteomics
-
DOI 10.1038/nrm1939, PII NRM1939
-
Jensen ON (2006) Interpreting the protein language using proteomics. Nat Rev Mol Cell Biol 7(6):391-403, DOI 10.1038/nrm1939, URLhttp://www.ncbi.nlm.nih. gov/pubmed/16723975,PMID: 16723975 (Pubitemid 44050093)
-
(2006)
Nature Reviews Molecular Cell Biology
, vol.7
, Issue.6
, pp. 391-403
-
-
Jensen, O.N.1
-
31
-
-
0036207347
-
Modeling and simulation of genetic regulatory systems: A literature review
-
DOI 10.1089/10665270252833208
-
de Jong H (2002) Modeling and simulation of genetic regulatory systems: a literature review. J Comput Biol: J Comput Mol Cell Biol 9(1):67-103, DOI 10.1089/10665270252833208, URLhttp://www.ncbi.nlm.nih.gov/pubmed/11911796, PMID: 11911796 (Pubitemid 34264287)
-
(2002)
Journal of Computational Biology
, vol.9
, Issue.1
, pp. 67-103
-
-
De Jong, H.1
-
32
-
-
75849156133
-
Simplistic pathways or complex networks?
-
DOI 10.1016/j.gde.2009.12.003, URL, PMID: 20096559
-
Jorgensen C, Linding R (2010) Simplistic pathways or complex networks? Curr Opin Genet Dev 20(1):15-22, DOI 10.1016/j.gde.2009.12.003, URL http://www.ncbi.nlm.nih.gov/pubmed/20096559, PMID: 20096559
-
(2010)
Curr Opin Genet Dev
, vol.20
, Issue.1
, pp. 15-22
-
-
Jorgensen, C.1
Linding, R.2
-
33
-
-
72149101924
-
Cell-specific information processing in segregating populations of eph receptor ephrin-expressing cells
-
New York, NY DOI 10.1126/science.1176615, URL, PMID:20007894
-
Jorgensen C, Sherman A, Chen GI, Pasculescu A, Poliakov A, Hsiung M, Larsen B,Wilkinson DG, Linding R, Pawson T (2009) Cell-specific information processing in segregating populations of eph receptor ephrin-expressing cells. Science (New York, NY) 326(5959):1502-1509, DOI 10.1126/science.1176615, URL http://www.ncbi.nlm.nih.gov/pubmed/20007894, PMID:20007894
-
(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
-
34
-
-
84882902409
-
-
Chapter 4 Academic Press, San Diego DOI 10.1016/B978-0-12-372550-9.00004- 3, URL
-
Joughin BA, Cheung E, Karuturi RKM, Saez-Rodriguez J , Lauffenburger DA, Liu ET (2010) Cellular regulatory networks, systems biomedicine -Chapter 4. Academic Press, San Diego, pp 57-108, DOI 10.1016/B978-0-12-372550-9.00004-3, URL http://www.sciencedirect.com/science/article/pii/B9780123725509000043
-
(2010)
Cellular Regulatory Networks, Systems Biomedicine
, pp. 57-108
-
-
Joughin, B.A.1
Cheung, E.2
Rkm, K.3
Saez-Rodriguez, J.4
Lauffenburger, D.A.5
Liu, E.T.6
-
35
-
-
0014671878
-
Homeostasis and differentiation in random genetic control networks
-
PMID: 5343519
-
Kauffman S (1969) Homeostasis and differentiation in random genetic control networks. Nature 224(5215):177-178, URL http://www.ncbi.nlm.nih.gov/ pubmed/5343519, PMID: 5343519
-
(1969)
Nature
, vol.224
, Issue.5215
, pp. 177-178
-
-
Kauffman, S.1
-
36
-
-
33644524741
-
Cell-signalling dynamics in time and space
-
DOI 10.1038/nrm1838, URL, PMID: 16482094
-
Kholodenko BN (2006) Cell-signalling dynamics in time and space. Nat Rev Mol Cell Biol 7(3):165-176, DOI 10.1038/nrm1838, URLhttp://www.ncbi.nlm.nih.gov/ pubmed/16482094, PMID: 16482094
-
(2006)
Nat Rev Mol Cell Biol
, vol.7
, Issue.3
, pp. 165-176
-
-
Kholodenko, B.N.1
-
37
-
-
40649117198
-
Dissection of the insulin signaling pathway via quantitative phosphoproteomics
-
DOI 10.1073/pnas.0711713105
-
Krueger M, Kratchmarova I, Blagoev B, Tseng Y, Kahn CR, Mann M (2008) Dissection of the insulin signaling pathway via quantitative phosphoproteomics. Proc Natl Acad Sci USA 105(7):2451-2456, DOI 10.1073/pnas.0711713105, URL http://www.ncbi.nlm.nih.gov/pubmed/18268350, PMID: 18268350 (Pubitemid 351520534)
-
(2008)
Proceedings of the National Academy of Sciences of the United States of America
, vol.105
, Issue.7
, pp. 2451-2456
-
-
Kruger, M.1
Kratchmarova, I.2
Blagoev, B.3
Tseng, Y.-H.4
Kahn, C.R.5
Mann, M.6
-
38
-
-
79951918942
-
Fluorescent cell barcoding for multiplex flow cytometry
-
Robinson JP, Darzynkiewicz Z, Dobrucki J, Hyun WC, Nolan JP, Orfao A, Rabinovitch PS (eds) John Wiley & Sons, Inc., Hoboken, NJ, USA, URL
-
Krutzik PO, Clutter MR, Trejo A, Nolan GP (2011) Fluorescent cell barcoding for multiplex flow cytometry. In: Robinson JP, Darzynkiewicz Z, Dobrucki J, Hyun WC, Nolan JP, Orfao A, Rabinovitch PS (eds) Current protocols in cytometry. John Wiley & Sons, Inc., Hoboken, NJ, USA, URL http://www.currentprotocols.com/protocol/cy0631
-
(2011)
Current Protocols in Cytometry.
-
-
Krutzik, P.O.1
Clutter, M.R.2
Trejo, A.3
Nolan, G.P.4
-
39
-
-
38549107133
-
Comparison of probabilistic Boolean network and dynamic bayesian network approaches for inferring gene regulatory networks
-
DOI 10.1186/1471-2105-8-S7-S13, URL, PMID: 18047712
-
Li P, Zhang C, Perkins EJ, Gong P, Deng Y (2007) Comparison of probabilistic Boolean network and dynamic bayesian network approaches for inferring gene regulatory networks. BMC Bioinformatics 8 Suppl 7:S13, DOI 10.1186/1471-2105-8-S7-S13, URL http://www.ncbi.nlm.nih.gov/pubmed/18047712, PMID: 18047712
-
(2007)
BMC Bioinformatics 8 Suppl
, vol.7
-
-
Li, P.1
Zhang, C.2
Perkins, E.J.3
Gong, P.4
Deng, Y.5
-
40
-
-
34250743173
-
Systematic Discovery of In Vivo Phosphorylation Networks
-
DOI 10.1016/j.cell.2007.05.052, PII S0092867407007271
-
Linding R, Jensen LJ, Ostheimer GJ, van Vugt MATM, Jorgensen C, Miron IM, Diella F, Colwill K, Taylor L, Elder K, Metalnikov P, Nguyen V, Pasculescu A, Jin J, Park JG, Samson LD, Woodgett JR, Russell RB, Bork P, Yaffe MB, Pawson T (2007) Systematic discovery of in vivo phosphorylation networks. Cell 129(7):1415-1426, DOI 10.1016/j.cell.2007.05.052, URL http://www.ncbi.nlm.nih. gov/pubmed/17570479, PMID: 17570479 (Pubitemid 46962092)
-
(2007)
Cell
, vol.129
, Issue.7
, pp. 1415-1426
-
-
Linding, R.1
Jensen, L.J.2
Ostheimer, G.J.3
Van Vugt, M.A.T.M.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, RobertB.18
Bork, P.19
Yaffe, M.B.20
Pawson, T.21
more..
-
41
-
-
34548522775
-
Advances in proteomic workflows for systems biology
-
DOI 10.1016/j.copbio.2007.07.005, PII S0958166907000870, Protein technologies / Systems Biology
-
Malmstrm J, Lee H, Aebersold R (2007) Advances in proteomic workflows for systems biology. Curr Opin Biotechnol 18(4):378-384, DOI 10.1016/j.copbio.2007. 07.005, URL http://www.ncbi.nlm.nih.gov/pubmed/17698335, PMID: 17698335 (Pubitemid 47385185)
-
(2007)
Current Opinion in Biotechnology
, vol.18
, Issue.4
, pp. 378-384
-
-
Malmstrom, J.1
Lee, H.2
Aebersold, R.3
-
42
-
-
33947305781
-
ARACNE: An algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context
-
DOI 10.1186/1471-2105-7-S1-S7, URL, PMID: 16723010
-
Margolin AA, Nemenman I, Basso K,Wiggins C, Stolovitzky G, Favera RD, Califano A (2006) ARACNE: an algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context. BMC Bioinformatics 7 Suppl 1:S7, DOI 10.1186/1471-2105-7-S1-S7, URLhttp://www.ncbi.nlm.nih.gov/pubmed/16723010, PMID: 16723010
-
(2006)
BMC Bioinformatics 7 Suppl
, vol.1
-
-
Margolin, A.A.1
Nemenman, I.2
Basso Kwiggins, C.3
Stolovitzky, G.4
Favera, R.D.5
Califano, A.6
-
43
-
-
77649213364
-
How to understand the cell by breaking it: Network analysis of gene perturbation screens
-
e1000655, DOI 10.1371/journal.pcbi.1000655, URL, PMID: 20195495
-
Markowetz F (2010) How to understand the cell by breaking it: network analysis of gene perturbation screens. PLoS Comput Biol 6(2):e1000,655, DOI 10.1371/journal.pcbi.1000655, URL http://www.ncbi.nlm.nih.gov/pubmed/20195495, PMID: 20195495
-
(2010)
PLoS Comput Biol
, vol.6
, Issue.2
-
-
Markowetz, F.1
-
44
-
-
38449088751
-
Inferring cellular networks -A review
-
DOI 10.1186/1471-2105-8-S6-S5, URL, PMID: 17903286
-
Markowetz F, Spang R (2007) Inferring cellular networks -A review. BMC Bioinformatics 8 Suppl 6:S5, DOI 10.1186/1471-2105-8-S6-S5, URL http://www.ncbi.nlm.nih.gov/pubmed/17903286, PMID: 17903286
-
(2007)
BMC Bioinformatics 8 Suppl
, vol.6
-
-
Markowetz, F.1
Spang, R.2
-
45
-
-
34249947699
-
ATM and ATR substrate analysis reveals extensive protein networks responsive to DNA damage
-
DOI 10.1126/science.1140321
-
Matsuoka S, Ballif BA, Smogorzewska A, McDonald ER, Hurov KE, Luo J, Bakalarski CE, Zhao Z, Solimini N, Lerenthal Y, Shiloh Y, Gygi SP, Elledge SJ (2007) ATMand ATR substrate analysis reveals extensive protein networks responsive to DNA damage. Science (New York, NY) 316(5828):1160-1166, DOI 10.1126/science.1140321, URL http://www.ncbi.nlm.nih.gov/pubmed/17525332, PMID: 17525332 (Pubitemid 46877472)
-
(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
-
46
-
-
55749111058
-
Linear motif atlas for phosphorylation-dependent signaling
-
DOI 10.1126/scisignal.1159433, URL, PMID: 18765831
-
MillerML, Jensen LJ, Diella F, Jorgensen C, Tinti M, Li L, Hsiung M, Parker SA, Bordeaux J, Sicheritz-Ponten T, Olhovsky M, Pasculescu A, Alexander J, Knapp S, Blom N, Bork P, Li S, Cesareni G, Pawson T, Turk BE, Yaffe MB, Brunak S, Linding R (2008) Linear motif atlas for phosphorylation-dependent signaling. Sci Signal 1(35):ra2, DOI 10.1126/scisignal.1159433, URL http://www.ncbi.nlm.nih.gov/pubmed/18765831, PMID: 18765831
-
(2008)
Sci Signal
, vol.1
, Issue.35
-
-
Millerml Jensen, L.J.1
Diella, F.2
Jorgensen, C.3
Tinti, M.4
Li, L.5
Hsiung, M.6
Parker, S.A.7
Bordeaux, J.8
Sicheritz-Ponten, T.9
Olhovsky, M.10
Pasculescu, A.11
Alexander, J.12
Knapp, S.13
Blom, N.14
Bork, P.15
Li, S.16
Cesareni, G.17
Pawson, T.18
Turk, B.E.19
Yaffe, M.B.20
Brunak, S.21
Linding, R.22
more..
-
47
-
-
77950943011
-
Logic-based models for the analysis of cell signaling networks
-
DOI 10.1021/ bi902202q, URL, PMID: 20225868
-
Morris MK, Saez-Rodriguez J, Sorger PK, Lauffenburger DA (2010) Logic-based models for the analysis of cell signaling networks. Biochemistry 49(15):3216-3224, DOI 10.1021/ bi902202q, URL http://www.ncbi.nlm.nih.gov/ pubmed/20225868, PMID: 20225868
-
(2010)
Biochemistry
, vol.49
, Issue.15
, pp. 3216-3224
-
-
Morris, M.K.1
Saez-Rodriguez, J.2
Sorger, P.K.3
Lauffenburger, D.A.4
-
48
-
-
79953668247
-
Training signaling pathway maps to biochemical data with constrained fuzzy logic: Quantitative analysis of liver cell responses to inflammatory stimuli
-
e1001 099 DOI 10. 1371/journal.pcbi.1001099, URL
-
Morris MK, Saez-Rodriguez J, Clarke DC, Sorger PK, Lauffenburger DA (2011) Training signaling pathway maps to biochemical data with constrained fuzzy logic: quantitative analysis of liver cell responses to inflammatory stimuli. PLoS Comput Biol 7(3):e1001,099, DOI 10. 1371/journal.pcbi.1001099, URL http://dx.doi.org/10.1371/journal.pcbi.1001099
-
(2011)
PLoS Comput Biol
, vol.7
, Issue.3
-
-
Morris, M.K.1
Saez-Rodriguez, J.2
Clarke, D.C.3
Sorger, P.K.4
Lauffenburger, D.A.5
-
49
-
-
55749093996
-
Network inference using informative priors
-
DOI 10.1073/pnas.0802272105, URLhttp://www.pnas.org/content/105/38/14313. abstract
-
Mukherjee S, Speed TP (2008) Network inference using informative priors. Proc Natl Acad Sci 105(38):14,313-14,318, DOI 10.1073/pnas.0802272105, URLhttp://www.pnas.org/content/105/38/14313.abstract
-
(2008)
Proc Natl Acad Sci
, vol.105
, Issue.38
, pp. 14313-14318
-
-
Mukherjee, S.1
Speed, T.P.2
-
50
-
-
78149309682
-
PTMScout, a web resource for analysis of high throughput posttranslational proteomics studies
-
DOI 10.1074/mcp. M110.001206, URL, PMID: 20631208
-
Naegle KM, Gymrek M, Joughin BA, Wagner JP, Welsch RE, Yaffe MB, Lauffenburger DA, White FM (2010) PTMScout, a web resource for analysis of high throughput posttranslational proteomics studies. Mol Cell Proteom MCP 9(11):2558-2570, DOI 10.1074/mcp. M110.001206, URL http://www.ncbi.nlm.nih.gov/ pubmed/20631208, PMID: 20631208
-
(2010)
Mol Cell Proteom MCP
, vol.9
, Issue.11
, pp. 2558-2570
-
-
Naegle, K.M.1
Gymrek, M.2
Joughin, B.A.3
Wagner, J.P.4
Welsch, R.E.5
Yaffe, M.B.6
Lauffenburger, D.A.7
White, F.M.8
-
51
-
-
51049117937
-
Models from experiments: Combinatorial drug perturbations of cancer cells
-
DOI 10.1038/msb.2008.53, URL, PMID: 18766176
-
Nelander S, Wang W, Nilsson B, She Q, Pratilas C, Rosen N, Gennemark P, Sander C (2008) Models from experiments: combinatorial drug perturbations of cancer cells. Mol Syst Biol 4:216, DOI 10.1038/msb.2008.53, URL http://www.ncbi.nlm.nih.gov/pubmed/18766176,PMID: 18766176
-
(2008)
Mol Syst Biol
, vol.4
, pp. 216
-
-
Nelander, S.1
Wang, W.2
Nilsson, B.3
She, Q.4
Pratilas, C.5
Rosen, N.6
Gennemark, P.7
Sander, C.8
-
52
-
-
27644555055
-
Interpretation of shotgun proteomic data: The protein inference problem
-
DOI 10.1074/mcp.R500012-MCP200
-
Nesvizhskii AI, Aebersold R (2005) Interpretation of shotgun proteomic data: the protein inference problem. Mol Cell Proteom MCP 4(10):1419-1440, DOI 10.1074/mcp. R500012-MCP200, URL http://www.ncbi.nlm.nih.gov/pubmed/16009968, PMID: 16009968 (Pubitemid 41555469)
-
(2005)
Molecular and Cellular Proteomics
, vol.4
, Issue.10
, pp. 1419-1440
-
-
Nesvizhskii, A.I.1
Aebersold, R.2
-
53
-
-
79951924292
-
Effective representation and storage of mass Spectrometry-Based proteomic data sets for the scientific community
-
DOI 10.1126/scisignal. 2001839, URL
-
Olsen JV, Mann M (2011) Effective representation and storage of mass Spectrometry-Based proteomic data sets for the scientific community. Sci Signal 4(160):pe7, DOI 10.1126/scisignal. 2001839, URL http://stke.sciencemag.org/cgi/ content/abstract/sigtrans;4/160/pe7
-
(2011)
Sci Signal
, vol.4
, Issue.160
-
-
Olsen, J.V.1
Mann, M.2
-
54
-
-
33750456519
-
Global, in vivo, and site-specific phosphorylation dynamics in signaling networks
-
DOI 10.1016/j.cell.2006.09.026, PII S0092867406012748
-
Olsen JV, Blagoev B, Gnad F, Macek B, Kumar C, Mortensen P, Mann M (2006) Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. Cell 127(3):635-648, DOI 10.1016/j.cell.2006.09.026, URL http://www.ncbi.nlm.nih.gov/pubmed/17081983,PMID: 17081983 (Pubitemid 44647421)
-
(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
-
55
-
-
0036583926
-
Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics
-
DOI 10.1074/mcp. M200025-MCP200, URL
-
Ong S, Blagoev B, Kratchmarova I, Kristensen DB, Steen H, Pandey A, Mann M (2002) Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. Mol Cell Proteom 1(5):376-386, DOI 10.1074/mcp. M200025-MCP200, URL http://www.mcponline.org/ content/1/5/376.abstract
-
(2002)
Mol Cell Proteom
, vol.1
, Issue.5
, pp. 376-386
-
-
Ong, S.1
Blagoev, B.2
Kratchmarova, I.3
Kristensen, D.B.4
Steen, H.5
Pandey, A.6
Mann, M.7
-
56
-
-
68749094119
-
Full dynamic range proteome analysis of S. Cerevisiae by targeted proteomics
-
DOI 10.1016/j.cell.2009.05.051, URL, PMID: 19664813
-
Picotti P, Bodenmiller B, Mueller LN, Domon B, Aebersold R (2009) Full dynamic range proteome analysis of s. cerevisiae by targeted proteomics. Cell 138(4):795-806, DOI 10.1016/j.cell.2009.05.051, URL http://www.ncbi.nlm.nih.gov/ pubmed/19664813, PMID: 19664813
-
(2009)
Cell
, vol.138
, Issue.4
, pp. 795-806
-
-
Picotti, P.1
Bodenmiller, B.2
Mueller, L.N.3
Domon, B.4
Aebersold, R.5
-
57
-
-
77949644952
-
Towards a rigorous assessment of systems biology models: The DREAM3 challenges
-
DOI 10.1371/journal.pone.0009202, URL, PMID: 20186320
-
Prill RJ, Marbach D, Saez-Rodriguez J, Sorger PK, Alexopoulos LG, Xue X, Clarke ND, Altan-Bonnet G, Stolovitzky G (2010) Towards a rigorous assessment of systems biology models: the DREAM3 challenges. PloS One 5(2):e9202, DOI 10.1371/journal.pone.0009202, URL http://www.ncbi.nlm.nih.gov/pubmed/20186320, PMID: 20186320
-
(2010)
PloS One
, vol.5
, Issue.2
-
-
Prill, R.J.1
Marbach, D.2
Saez-Rodriguez, J.3
Sorger, P.K.4
Alexopoulos, L.G.5
Xue, X.6
Clarke, N.D.7
Altan-Bonnet, G.8
Stolovitzky, G.9
-
58
-
-
75849125610
-
Quantifying oncogenic phosphotyrosine signaling networks through systems biology
-
DOI 10.1016/j.gde.2009.12.005, URL, PMID: 20074929
-
Rosario AMD, White FM (2010) Quantifying oncogenic phosphotyrosine signaling networks through systems biology. Curr Opin Genet Dev 20(1):23-30, DOI 10.1016/j.gde.2009.12.005, URL http://www.ncbi.nlm.nih.gov/pubmed/20074929, PMID: 20074929
-
(2010)
Curr Opin Genet Dev
, vol.20
, Issue.1
, pp. 23-30
-
-
Amd, R.1
White, F.M.2
-
59
-
-
17644427718
-
Causal protein-signaling networks derived from multiparameter single-cell data
-
DOI 10.1126/science.1105809
-
Sachs K, Perez O, Pe'er D, Lauffenburger DA, Nolan GP (2005) Causal Protein-Signaling networks derived from multiparameter Single-Cell data. Science 308(5721):523-529, DOI 10.1126/science.1105809, URL http://www.sciencemag.org/ content/308/5721/523.abstract (Pubitemid 40570578)
-
(2005)
Science
, vol.308
, Issue.5721
, pp. 523-529
-
-
Sachs, K.1
Perez, O.2
Pe'er, D.3
Lauffenburger, D.A.4
Nolan, G.P.5
-
60
-
-
40749128970
-
Flexible informatics for linking experimental data to mathematical models via DataRail
-
DOI 10.1093/bioinformatics/btn018
-
Saez-Rodriguez J, Goldsipe A, Muhlich J, Alexopoulos LG, Millard B, Lauffenburger DA, Sorger PK (2008) Flexible informatics for linking experimental data to mathematical models via DataRail. Bioinformatics 24(6):840-847, DOI 10.1093/bioinformatics/btn018, URL http://bioinformatics.oxfordjournals.org/ content/24/6/840.abstract (Pubitemid 351386923)
-
(2008)
Bioinformatics
, vol.24
, Issue.6
, pp. 840-847
-
-
Saez-Rodriguez, J.1
Goldsipe, A.2
Muhlich, J.3
Alexopoulos, L.G.4
Millard, B.5
Lauffenburger, D.A.6
Sorger, P.K.7
-
61
-
-
71449120701
-
Discrete logic modelling as a means to link protein signalling networks with functional analysis of mammalian signal transduction
-
DOI 10.1038/msb.2009.87, URL, PMID: 19953085
-
Saez-Rodriguez J, Alexopoulos LG, Epperlein J, Samaga R, Lauffenburger DA, Klamt S, Sorger PK (2009) Discrete logic modelling as a means to link protein signalling networks with functional analysis of mammalian signal transduction. Mol Syst Biol 5:331, DOI 10.1038/msb.2009.87, URL http://www.ncbi.nlm.nih.gov/pubmed/19953085, PMID: 19953085
-
(2009)
Mol Syst Biol
, vol.5
, pp. 331
-
-
Saez-Rodriguez, J.1
Alexopoulos, L.G.2
Epperlein, J.3
Samaga, R.4
Lauffenburger, D.A.5
Klamt, S.6
Sorger, P.K.7
-
62
-
-
79951871564
-
Setting the standards for signal transduction research
-
DOI 10.1126/scisignal.2001844, URL
-
Saez-Rodriguez J, Alexopoulos LG, Stolovitzky G (2011) Setting the standards for signal transduction research. Sci Signal 4(160):pe10, DOI 10.1126/scisignal.2001844, URL http://stke.sciencemag.org/cgi/content/abstract/ sigtrans;4/160/pe10
-
(2011)
Sci Signal
, vol.4
, Issue.160
-
-
Saez-Rodriguez, J.1
Alexopoulos, L.G.2
Stolovitzky, G.3
-
63
-
-
33847355217
-
Growth factor-induced MAPK network topology shapes Erk response determining PC-12 cell fate
-
DOI 10.1038/ncb1543, PII NCB1543
-
Santos SDM, Verveer PJ, Bastiaens PIH (2007) Growth factor-induced MAPK network topology shapes erk response determining PC-12 cell fate. Nat Cell Biol 9(3):324-330, DOI 10.1038/ncb1543, URL http://www.ncbi.nlm.nih.gov/pubmed/ 17310240, PMID: 17310240 (Pubitemid 46344612)
-
(2007)
Nature Cell Biology
, vol.9
, Issue.3
, pp. 324-330
-
-
Santos, S.D.M.1
Verveer, P.J.2
Bastiaens, P.I.H.3
-
64
-
-
0036253914
-
An accurate mass tag strategy for quantitative and high-throughput proteome measurements
-
DOI 10.1002/1615-9861(200205)2:5<513::AID-PROT513>3.0.CO;2-W
-
Smith RD, Anderson GA, Lipton MS, Pasa-Tolic L, Shen Y, Conrads TP, Veenstra TD, Udseth HR (2002) An accurate mass tag strategy for quantitative and high-throughput proteome measurements. Proteomics 2(5):513-523, DOI 10.1002/1615-9861(200205)2:5h513:: AID-PROT513i3.0.CO;2-W, URL http://www.ncbi.nlm.nih.gov/pubmed/11987125, PMID:11987125 (Pubitemid 34507341)
-
(2002)
Proteomics
, vol.2
, Issue.5
, pp. 513-523
-
-
Smith, R.D.1
Anderson, G.A.2
Lipton, M.S.3
Pasa-Tolic, L.4
Shen, Y.5
Conrads, T.P.6
Veenstra, T.D.7
Udseth, H.R.8
-
65
-
-
79551555393
-
Efficient modeling, simulation and coarse-graining of biological complexity with NFsim
-
DOI 10.1038/nmeth.1546, URL, PMID: 21186362
-
Sneddon MW, Faeder JR, Emonet T (2011) Efficient modeling, simulation and coarse-graining of biological complexity with NFsim. NatMeth 8(2):177-183, DOI 10.1038/nmeth.1546, URLhttp://www.ncbi.nlm.nih.gov/pubmed/21186362, PMID: 21186362
-
(2011)
NatMeth
, vol.8
, Issue.2
, pp. 177-183
-
-
Sneddon, M.W.1
Faeder, J.R.2
Emonet, T.3
-
66
-
-
4444335470
-
The ABC's (and XYZ's) of peptide sequencing
-
DOI 10.1038/nrm1468
-
Steen H, Mann M (2004) The ABC's (and XYZ's) of peptide sequencing. Nat Rev Mol Cell Biol 5(9):699-711, DOI 10.1038/nrm1468, URL http://www.ncbi.nlm. nih.gov/pubmed/15340378, PMID: 15340378 (Pubitemid 39208180)
-
(2004)
Nature Reviews Molecular Cell Biology
, vol.5
, Issue.9
, pp. 699-711
-
-
Steen, H.1
Mann, M.2
-
67
-
-
77953563038
-
Roles of "junk phosphorylation" in modulating biomolecular association of phosphorylated proteins?
-
Georgetown, Tex, URL, PMID: 20234177
-
Tan CSH, Jrgensen C, Linding R (2010) Roles of "junk phosphorylation" in modulating biomolecular association of phosphorylated proteins? Cell Cycle (Georgetown, Tex) 9(7):1276-1280, URL http://www.ncbi.nlm. nih.gov/pubmed/20234177, PMID: 20234177
-
(2010)
Cell Cycle
, vol.9
, Issue.7
, pp. 1276-1280
-
-
Csh, T.1
Jrgensen, C.2
Linding, R.3
-
68
-
-
34247490549
-
Multiplex bio-assay with inductively coupled plasma mass spectrometry: Towards a massively multivariate single-cell technology
-
DOI 10.1016/j.sab.2007.01.008, PII S0584854707000122
-
Tanner SD, Ornatsky O, Bandura DR, Baranov VI (2007) Multiplex bio-assay with inductively coupled plasma mass spectrometry: towards a massively multivariate single-cell technology. Spectrochim Acta B 62(3):188-195, DOI 10.1016/j.sab.2007. 01.008, URL http://www.sciencedirect.com/science/article/ B6THN-4N0HJDH-1/2/05bbd4e8f7b003df4d258be40015b7ba (Pubitemid 46661099)
-
(2007)
Spectrochimica Acta - Part B Atomic Spectroscopy
, vol.62
, Issue.3 SPEC. ISS.
, pp. 188-195
-
-
Tanner, S.D.1
Ornatsky, O.2
Bandura, D.R.3
Baranov, V.I.4
-
69
-
-
45749118607
-
Promoting coherent minimum reporting guidelines for biological and biomedical investigations: The MIBBI project
-
DOI 10.1038/nbt.1411, URL
-
Taylor CF, Field D, Sansone S, Aerts J, Apweiler R, Ashburner M, Ball CA, Binz P, Bogue M, Booth T, Brazma A, Brinkman RR, Clark AM, Deutsch EW, Fiehn O, Fostel J, Ghazal P, Gibson F, Gray T, Grimes G, Hancock JM, Hardy NW, Hermjakob H, Julian RK, Kane M, Kettner C, Kinsinger C, Kolker E, Kuiper M, Novere NL, Leebens-Mack J, Lewis SE, Lord P, Mallon A, Marthandan N, Masuya H, McNally R, Mehrle A, Morrison N, Orchard S, Quackenbush J, Reecy JM, Robertson DG, Rocca-Serra P, Rodriguez H, Rosenfelder H, Santoyo-Lopez J, Scheuermann RH, Schober D, Smith B, Snape J, Stoeckert CJ, Tipton K, Sterk P, Untergasser A, Vandesompele J, Wiemann S (2008) Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project. Nat Biotechnol 26(8):889-896, DOI 10.1038/nbt.1411, URL http://dx.doi.org/10.1038/nbt.1411
-
(2008)
Nat Biotechnol
, vol.26
, Issue.8
, pp. 889-896
-
-
Taylor, C.F.1
Field, D.2
Sansone, S.3
Aerts, J.4
Apweiler, R.5
Ashburner, M.6
Ball, C.A.7
Binz, P.8
Bogue, M.9
Booth, T.10
Brazma, A.11
Brinkman, R.R.12
Clark, A.M.13
Deutsch, E.W.14
Fiehn, O.15
Fostel, J.16
Ghazal, P.17
Gibson, F.18
Gray, T.19
Grimes, G.20
Hancock, J.M.21
Hardy, N.W.22
Hermjakob, H.23
Julian, R.K.24
Kane, M.25
Kettner, C.26
Kinsinger, C.27
Kolker, E.28
Kuiper, M.29
Novere, N.L.30
Leebens-Mack, J.31
Lewis, S.E.32
Lord, P.33
Mallon, A.34
Marthandan, N.35
Masuya, H.36
McNally, R.37
Mehrle, A.38
Morrison, N.39
Orchard, S.40
Quackenbush, J.41
Reecy, J.M.42
Robertson, D.G.43
Rocca-Serra, P.44
Rodriguez, H.45
Rosenfelder, H.46
Santoyo-Lopez, J.47
Scheuermann, R.H.48
Schober, D.49
Smith, B.50
Snape, J.51
Stoeckert, C.J.52
Tipton, K.53
Sterk, P.54
Untergasser, A.55
Vandesompele, J.56
Wiemann, S.57
more..
-
70
-
-
12444345515
-
Tandem mass tags: A novel quantification strategy for comparative analysis of complex protein mixtures by MS/MS
-
DOI 10.1021/ac0262560
-
Thompson A, Schfer J, Kuhn K, Kienle S, Schwarz J, Schmidt G, Neumann T, Hamon C (2003) Tandem mass tags: a novel quantification strategy for comparative analysis of complex protein mixtures by MS/MS. Anal Chem 75(8):1895-1904, DOI 10.1021/ac0262560, URL http://dx.doi.org/10.1021/ac0262560 (Pubitemid 36438013)
-
(2003)
Analytical Chemistry
, 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
Hamon, C.8
-
71
-
-
0034699375
-
Multiplexed particle-based flow cytometric assays
-
PMID: 10986418
-
Vignali DA (2000) Multiplexed particle-based flow cytometric assays. J Immunol Meth 243(1-2):243-255, URL http://www.ncbi.nlm.nih.gov/pubmed/10986418, PMID: 10986418
-
(2000)
J Immunol Meth
, vol.243
, Issue.1-2
, pp. 243-255
-
-
Vignali, D.A.1
-
72
-
-
70349091863
-
A guide to the proteomics identifications database proteomics data repository
-
DOI 10.1002/pmic.200900402, URL, PMID: 19662629
-
Vizcano JA, Ct R, Reisinger F, Foster JM, Mueller M, Rameseder J, Hermjakob H, Martens L (2009) A guide to the proteomics identifications database proteomics data repository. Proteomics 9(18):4276-4283, DOI 10.1002/pmic.200900402, URL http://www.ncbi.nlm.nih.gov/pubmed/19662629, PMID: 19662629
-
(2009)
Proteomics
, vol.9
, Issue.18
, pp. 4276-4283
-
-
Vizcano, J.A.1
Ct, R.2
Reisinger, F.3
Foster, J.M.4
Mueller, M.5
Rameseder, J.6
Hermjakob, H.7
Martens, L.8
-
73
-
-
77956261738
-
Sequence signatures and mRNA concentration can explain two-thirds of protein abundance variation in a human cell line
-
DOI 10.1038/msb.2010. 59, URL
-
Vogel C, de Sousa Abreu R, Ko D, Le S, Shapiro BA, Burns SC, Sandhu D, Boutz DR,Marcotte EM, Penalva LO (2010) Sequence signatures and mRNA concentration can explain two-thirds of protein abundance variation in a human cell line. Mol Syst Biol 6, DOI 10.1038/msb.2010. 59, URLhttp://dx.doi.org/10. 1038/msb.2010.59
-
(2010)
Mol Syst Biol
, vol.6
-
-
Vogel, C.1
De Sousa Abreu, R.2
Ko, D.3
Le Shapiro, S.B.A.4
Burns, S.C.5
Sandhu, D.6
Boutz, D.R.7
Marcotte, E.M.8
Penalva, L.O.9
-
74
-
-
43149109269
-
Logic models of pathway biology
-
DOI 10.1016/j.drudis.2008.03.019, URL, PMID: 18468563
-
Watterson S, Marshall S, Ghazal P (2008) Logic models of pathway biology. Drug Discov Today 13(9-10):447-456, DOI 10.1016/j.drudis.2008.03.019, URL http://www.ncbi.nlm.nih.gov/pubmed/18468563, PMID: 18468563
-
(2008)
Drug Discov Today
, vol.13
, Issue.9-10
, pp. 447-456
-
-
Watterson, S.1
Marshall, S.2
Ghazal, P.3
-
75
-
-
70349156763
-
Dissecting protein function and signaling using protein microarrays
-
DOI 10.1016/j.cbpa.2009.06.027, URL PMID: 19660979
-
Wolf-Yadlin A, Sevecka M, MacBeath G (2009) Dissecting protein function and signaling using protein microarrays. Curr Opin Chem Biol 13(4):398-405, DOI 10.1016/j.cbpa.2009.06.027, URL http://www.ncbi.nlm.nih.gov/pubmed/19660979, PMID: 19660979
-
(2009)
Curr Opin Chem Biol
, vol.13
, Issue.4
, pp. 398-405
-
-
Wolf-Yadlin, A.1
Sevecka, M.2
MacBeath, G.3
-
76
-
-
77954718615
-
Studies of phosphoproteomic changes induced by nucleophosmin-anaplastic lymphoma kinase (ALK) highlight deregulation of tumor necrosis factor (TNF)/Fas/TNF-related apoptosis-induced ligand signaling pathway in ALK-positive anaplastic large cell lymphoma
-
DOI 10.1074/mcp.M000153-MCP201, URL, PMID: 20393185
-
Wu F, Wang P, Zhang J, Young LC, Lai R, Li L (2010) Studies of phosphoproteomic changes induced by nucleophosmin-anaplastic lymphoma kinase (ALK) highlight deregulation of tumor necrosis factor (TNF)/Fas/TNF-related apoptosis-induced ligand signaling pathway in ALK-positive anaplastic large cell lymphoma. Mol Cell Proteom MCP 9(7):1616-1632, DOI 10.1074/mcp.M000153-MCP201, URL http://www.ncbi.nlm.nih.gov/pubmed/20393185,PMID: 20393185
-
(2010)
Mol Cell Proteom MCP
, vol.9
, Issue.7
, pp. 1616-1632
-
-
Wu, F.1
Wang, P.2
Zhang, J.3
Young, L.C.4
Lai, R.5
Li, L.6
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