-
1
-
-
85098053078
-
-
P.-A. Braillard & C. Malaterre (Eds.), Explanation in biology. An enquiry into the diversity of explanatory patterns in the life sciences (pp., Dordrecht: Springer
-
Baetu, T. (2015). From mechanisms to mathematical models and back to mechanisms: Quantitative mechanistic explanations. In P.-A. Braillard & C. Malaterre (Eds.), Explanation in biology. An enquiry into the diversity of explanatory patterns in the life sciences (pp. 345–363). Dordrecht: Springer.
-
(2015)
From Mechanisms to Mathematical Models and Back to Mechanisms: Quantitative Mechanistic Explanations
, pp. 345-363
-
-
Baetu, T.1
-
2
-
-
69249101668
-
Mathematical explanation in science
-
Baker, A. (2009). Mathematical explanation in science. The British Journal for the Philosophy of Science, 60(3), 611–633. doi:10.1093/bjps/axp025.
-
(2009)
The British Journal for the Philosophy of Science
, vol.60
, Issue.3
, pp. 611-633
-
-
Baker, A.1
-
4
-
-
78649903919
-
Petri nets for modelling metabolic pathways: A survey
-
Baldan, P., Cocco, N., Marin, A., & Simeoni, M. (2010). Petri nets for modelling metabolic pathways: A survey. Natural Computing, 9, 955–989. doi:10.1007/s11047-010-9180-6.
-
(2010)
Natural Computing
, vol.9
, pp. 955-989
-
-
Baldan, P.1
Cocco, N.2
Marin, A.3
Simeoni, M.4
-
5
-
-
80053069632
-
Mechanism and biological explanation
-
Bechtel, W. (2011). Mechanism and biological explanation. Philosophy of Science, 78(4), 533– 557. doi:10.1086/661513.
-
(2011)
Philosophy of Science
, vol.78
, Issue.4
, pp. 533-557
-
-
Bechtel, W.1
-
6
-
-
77957135953
-
Dynamic mechanistic explanation: Computational modeling of circadian rhythms as an exemplar for cognitive science
-
Bechtel, W., & Abrahamsen, A. (2010). Dynamic mechanistic explanation: Computational modeling of circadian rhythms as an exemplar for cognitive science. Studies in History and Philosophy of Science Part A, 41(3), 321–333. doi:10.1016/j.shpsa.2010.07.003.
-
(2010)
Studies in History and Philosophy of Science Part A
, vol.41
, Issue.3
, pp. 321-333
-
-
Bechtel, W.1
Abrahamsen, A.2
-
7
-
-
84890434713
-
Thinking dynamically about biological mechanisms: Networks of coupled oscillators
-
Bechtel, W., & Abrahamsen, A. A. (2012). Thinking dynamically about biological mechanisms: Networks of coupled oscillators. Foundations of Science. doi:10.1007/s10699-012-9301-z.
-
(2012)
Foundations of Science
-
-
Bechtel, W.1
Abrahamsen, A.A.2
-
8
-
-
0018838503
-
Anti-insulin receptor antibodies mimic the effects of insulin on the activities of pyruvate dehydrogenase and acetylCoA carboxylase and on specific protein phosphorylation in rat epididymal fat cells
-
Belsham, G. J., Brownsey, R. W., Hughes, W. A., & Denton, R. M. (1980). Anti-insulin receptor antibodies mimic the effects of insulin on the activities of pyruvate dehydrogenase and acetylCoA carboxylase and on specific protein phosphorylation in rat epididymal fat cells. Diabetologia, 18(4), 307–312. doi:10.1007/BF00251011.
-
(1980)
Diabetologia
, vol.18
, Issue.4
, pp. 307-312
-
-
Belsham, G.J.1
Brownsey, R.W.2
Hughes, W.A.3
Denton, R.M.4
-
9
-
-
77953783032
-
Mass and information feedbacks through receptor endocytosis govern insulin signaling as revealed using a parameter-free modeling framework
-
Brännmark, C., Palmér, R., Glad, S. T., Cedersund, G., & Strålfors, P. (2010). Mass and information feedbacks through receptor endocytosis govern insulin signaling as revealed using a parameter-free modeling framework. The Journal of Biological Chemistry, 285(26), 20171–20179. doi:10. 1074/jbc.M110.106849.
-
(2010)
The Journal of Biological Chemistry
, vol.285
, Issue.26
, pp. 20171-20179
-
-
Brännmark, C.1
Palmér, R.2
Glad, S.T.3
Cedersund, G.4
Strålfors, P.5
-
11
-
-
79551661274
-
O-GlcNAc transferase catalyzes site-specific proteolysis of HCF-1
-
Capotosti, F., Guernier, S., Lammers, F., Waridel, P., Cai, Y., Jin, J., Conaway, J. W., Conaway, R. C., & Herr, W. (2011). O-GlcNAc transferase catalyzes site-specific proteolysis of HCF-1. Cell, 144(3), 376–388.
-
(2011)
Cell
, vol.144
, Issue.3
, pp. 376-388
-
-
Capotosti, F.1
Guernier, S.2
Lammers, F.3
Waridel, P.4
Cai, Y.5
Jin, J.6
Conaway, J.W.7
Conaway, R.C.8
Herr, W.9
-
12
-
-
51849084360
-
The PTEN-PI3K pathway: Of feedbacks and cross-talks
-
Carracedo, A., & Pandolfi, P. (2008). The PTEN-PI3K pathway: Of feedbacks and cross-talks. Oncogene, 27(41), 5527–5541.
-
(2008)
Oncogene
, vol.27
, Issue.41
, pp. 5527-5541
-
-
Carracedo, A.1
Pandolfi, P.2
-
13
-
-
0032430963
-
Molecular basis of insulin action
-
Combettes-Souverain, M., & Issad, T. (1998). Molecular basis of insulin action. Diabetes & Metabolism, 24(6), 477.
-
(1998)
Diabetes & Metabolism
, vol.24
, Issue.6
, pp. 477
-
-
Combettes-Souverain, M.1
Issad, T.2
-
15
-
-
0018820017
-
Potential mechanism of insulin action on glucose transport in the isolated rat adipose cell. Apparent translocation of intracellular transport systems to the plasma membrane
-
Cushman, S. W., & Wardzala, L. J. (1980). Potential mechanism of insulin action on glucose transport in the isolated rat adipose cell. Apparent translocation of intracellular transport systems to the plasma membrane. Journal of Biological Chemistry, 255(10), 4758–4762.
-
(1980)
Journal of Biological Chemistry
, vol.255
, Issue.10
, pp. 4758-4762
-
-
Cushman, S.W.1
Wardzala, L.J.2
-
16
-
-
34047109279
-
Mixed meal simulation model of glucose-insulin system. In Conference proceedings: 26th annual international conference of the IEEE Engineering in Medicine and Biology Society
-
Dalla Man, C., Rizza, R. A., Cobelli, C. (2006). Mixed meal simulation model of glucose-insulin system. In Conference proceedings: 26th annual international conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Conference, 1(10), 307–310. doi:10.1109/IEMBS.2006.260810.
-
(2006)
IEEE Engineering in Medicine and Biology Society. Conference
, vol.1
, Issue.10
, pp. 307-310
-
-
Dalla Man, C.1
Rizza, R.A.2
Cobelli, C.3
-
18
-
-
0347506655
-
An overview of data models for the analysis of biochemical pathways
-
Deville, Y., Gilbert, D., van Helden, J., & Wodak, S. (2003). An overview of data models for the analysis of biochemical pathways. Briefings in Bioinformatics, 4(3), 246–259.
-
(2003)
Briefings in Bioinformatics
, vol.4
, Issue.3
, pp. 246-259
-
-
Deville, Y.1
Gilbert, D.2
van Helden, J.3
Wodak, S.4
-
19
-
-
0033017879
-
Stimulation of the extracellular signal-regulated kinase 1/2 pathway by human beta-3 adrenergic receptor: New pharmacological profile and mechanism of activation
-
Gerhardt, C. C., Gros, J., Strosberg, A. D., & Issad, T. (1999). Stimulation of the extracellular signal-regulated kinase 1/2 pathway by human beta-3 adrenergic receptor: New pharmacological profile and mechanism of activation. Molecular Pharmacology, 55(2), 255–262.
-
(1999)
Molecular Pharmacology
, vol.55
, Issue.2
, pp. 255-262
-
-
Gerhardt, C.C.1
Gros, J.2
Strosberg, A.D.3
Issad, T.4
-
20
-
-
0013112994
-
Rethinking mechanistic explanation
-
Glennan, S. S. (2002). Rethinking mechanistic explanation. Philosophy of Science, 69(3), S342– S353.
-
(2002)
Philosophy of Science
, vol.69
, Issue.3
, pp. S342-S353
-
-
Glennan, S.S.1
-
22
-
-
79952107840
-
Signaling, cytoskeletal and membrane mechanisms regulating GLUT4 exocytosis
-
Hoffman, N. J., & Elmendorf, J. S. (2011). Signaling, cytoskeletal and membrane mechanisms regulating GLUT4 exocytosis. Trends in Endocrinology & Metabolism, 22(3), 110–116.
-
(2011)
Trends in Endocrinology & Metabolism
, vol.22
, Issue.3
, pp. 110-116
-
-
Hoffman, N.J.1
Elmendorf, J.S.2
-
23
-
-
0030766163
-
Crystal structure of the activated insulin receptor tyrosine kinase in complex with peptide substrate and ATP analog
-
Hubbard, S. R. (1997). Crystal structure of the activated insulin receptor tyrosine kinase in complex with peptide substrate and ATP analog. The EMBO Journal, 16(18), 5572–5581.
-
(1997)
The EMBO Journal
, vol.16
, Issue.18
, pp. 5572-5581
-
-
Hubbard, S.R.1
-
24
-
-
0028582185
-
Crystal structure of the tyrosine kinase domain of the human insulin receptor
-
Hubbard, S. R., Wei, L., Ellis, L., & Hendrickson, W. A. (1994). Crystal structure of the tyrosine kinase domain of the human insulin receptor. Nature, 372(6508), 746.
-
(1994)
Nature
, vol.372
, Issue.6508
, pp. 746
-
-
Hubbard, S.R.1
Wei, L.2
Ellis, L.3
Hendrickson, W.A.4
-
25
-
-
0028856331
-
When is a lipid kinase not a lipid kinase? When it is a protein kinase
-
Hunter, T. (1995). When is a lipid kinase not a lipid kinase? When it is a protein kinase. Cell, 83(1), 1–4.
-
(1995)
Cell
, vol.83
, Issue.1
, pp. 1-4
-
-
Hunter, T.1
-
26
-
-
55649110871
-
O-GlcNAc modification of transcription factors, glucose sensing and glucotoxicity
-
Issad, T., & Kuo, M. (2008). O-GlcNAc modification of transcription factors, glucose sensing and glucotoxicity. Trends in Endocrinology & Metabolism, 19(10), 380–389.
-
(2008)
Trends in Endocrinology & Metabolism
, vol.19
, Issue.10
, pp. 380-389
-
-
Issad, T.1
Kuo, M.2
-
27
-
-
0028823245
-
Isoproterenol inhibits insulin-stimulated tyrosine phosphorylation of the insulin receptor without increasing its serine/threonine phosphorylation
-
Issad, T., Combettes, M., & Ferre, P. (1995). Isoproterenol inhibits insulin-stimulated tyrosine phosphorylation of the insulin receptor without increasing its serine/threonine phosphorylation. European Journal of Biochemistry, 234(1), 108–115.
-
(1995)
European Journal of Biochemistry
, vol.234
, Issue.1
, pp. 108-115
-
-
Issad, T.1
Combettes, M.2
Ferre, P.3
-
28
-
-
78649990012
-
O-GlcNAc modification, insulin signaling and diabetic complications
-
Issad, T., Masson, E., & Pagesy, P. (2010). O-GlcNAc modification, insulin signaling and diabetic complications. Diabetes & Metabolism, 36(6), 423–435.
-
(2010)
Diabetes & Metabolism
, vol.36
, Issue.6
, pp. 423-435
-
-
Issad, T.1
Masson, E.2
Pagesy, P.3
-
29
-
-
79961239547
-
Dynamical models: An alternative or complement to mechanistic explanations?
-
Kaplan, D. M., & Bechtel, W. (2011). Dynamical models: An alternative or complement to mechanistic explanations? Topics in Cognitive Science, 3(2), 438–444. doi:10.1111/j.1756-8765.2011.01147.x.
-
(2011)
Topics in Cognitive Science
, vol.3
, Issue.2
, pp. 438-444
-
-
Kaplan, D.M.1
Bechtel, W.2
-
30
-
-
80053089880
-
The explanatory force of dynamical and mathematical models in neuroscience: A mechanistic perspective
-
Kaplan, D. M., & Craver, C. F. (2011). The explanatory force of dynamical and mathematical models in neuroscience: A mechanistic perspective. Philosophy of Science, 78(4), 601–627.
-
(2011)
Philosophy of Science
, vol.78
, Issue.4
, pp. 601-627
-
-
Kaplan, D.M.1
Craver, C.F.2
-
31
-
-
0020360817
-
Insulin stimulation of phosphorylation of the beta subunit of the insulin receptor. Formation of both phosphoserine and phosphotyrosine
-
Kasuga, M., Zick, Y., Blith, D. L., Karlsson, F. A., Häring, H. U., & Kahn, C. R. (1982a). Insulin stimulation of phosphorylation of the beta subunit of the insulin receptor. Formation of both phosphoserine and phosphotyrosine. Journal of Biological Chemistry, 257(17), 9891–9894.
-
(1982)
Journal of Biological Chemistry
, vol.257
, Issue.17
, pp. 9891-9894
-
-
Kasuga, M.1
Zick, Y.2
Blith, D.L.3
Karlsson, F.A.4
Häring, H.U.5
Kahn, C.R.6
-
32
-
-
0020046655
-
Insulin stimulates tyrosine phosphorylation of the insulin receptor in a cell-free system
-
Kasuga, M., Zick, Y., Blith, D., Crettaz, M., & Kahn, C. (1982b). Insulin stimulates tyrosine phosphorylation of the insulin receptor in a cell-free system. Nature, 298, 667–669.
-
(1982)
Nature
, vol.298
, pp. 667-669
-
-
Kasuga, M.1
Zick, Y.2
Blith, D.3
Crettaz, M.4
Kahn, C.5
-
33
-
-
60749092852
-
Harmonic oscillator model of the insulin and IGF1 receptors’ allosteric binding and activation
-
Kiselyov, V. V., Versteyhe, S., Gauguin, L., & De Meyts, P. (2009). Harmonic oscillator model of the insulin and IGF1 receptors’ allosteric binding and activation. Molecular Systems Biology, 5(243), 243. doi:10.1038/msb.2008.78.
-
(2009)
Molecular Systems Biology
, vol.5
, Issue.243
, pp. 243
-
-
Kiselyov, V.V.1
Versteyhe, S.2
Gauguin, L.3
de Meyts, P.4
-
34
-
-
3042851621
-
Sending the signal: Molecular mechanisms regulating glucose uptake
-
Krook, A., Wallberg-Henriksson, H., & Zierath, J. R. (2004). Sending the signal: Molecular mechanisms regulating glucose uptake. Medicine and Science in Sports and Exercise, 36(7), 1212–1217.
-
(2004)
Medicine and Science in Sports and Exercise
, vol.36
, Issue.7
, pp. 1212-1217
-
-
Krook, A.1
Wallberg-Henriksson, H.2
Zierath, J.R.3
-
35
-
-
15744384803
-
Interaction of the insulin receptor with the receptor-like protein tyrosine phosphatases PTPalpha and PTPepsilon in living cells
-
Lacasa, D., Boute, N., & Issad, T. (2005). Interaction of the insulin receptor with the receptor-like protein tyrosine phosphatases PTPalpha and PTPepsilon in living cells. Molecular Pharmacology, 67(4), 1206–1213.
-
(2005)
Molecular Pharmacology
, vol.67
, Issue.4
, pp. 1206-1213
-
-
Lacasa, D.1
Boute, N.2
Issad, T.3
-
36
-
-
84881595486
-
What makes a scientific explanation distinctively mathematical?
-
Lange, M. (2012). What makes a scientific explanation distinctively mathematical? The British Journal for the Philosophy of Science, 0, 1–27. doi:10.1093/bjps/axs012.
-
(2012)
The British Journal for the Philosophy of Science
, pp. 1-27
-
-
Lange, M.1
-
37
-
-
0002101626
-
Thinking about mechanisms
-
Machamer, P., Darden, L., & Craver, C. (2000). Thinking about mechanisms. Philosophy of Science, 67(1), 1–25.
-
(2000)
Philosophy of Science
, vol.67
, Issue.1
, pp. 1-25
-
-
Machamer, P.1
Darden, L.2
Craver, C.3
-
38
-
-
16644403748
-
Representing bioinformatics causality
-
Mandel, J., Palfreyman, N., Lopez, J., & Dubitzky, W. (2004). Representing bioinformatics causality. Briefings in Bioinformatics, 5(3), 270–283.
-
(2004)
Briefings in Bioinformatics
, vol.5
, Issue.3
, pp. 270-283
-
-
Mandel, J.1
Palfreyman, N.2
Lopez, J.3
Dubitzky, W.4
-
39
-
-
16944366762
-
Regulation of protein kinase B and glycogen synthase kinase-3 by insulin and β-adrenergic agonists in rat epididymal fat cells activation of protein kinase B by wortmannin-sensitive and-insensitive mechanisms
-
Moule, S. K., Welsh, G. I., Edgell, N. J., Foulstone, E. J., Proud, C. G., & Denton, R. M. (1997). Regulation of protein kinase B and glycogen synthase kinase-3 by insulin and β-adrenergic agonists in rat epididymal fat cells activation of protein kinase B by wortmannin-sensitive and-insensitive mechanisms. Journal of Biological Chemistry, 272(12), 7713–7719.
-
(1997)
Journal of Biological Chemistry
, vol.272
, Issue.12
, pp. 7713-7719
-
-
Moule, S.K.1
Welsh, G.I.2
Edgell, N.J.3
Foulstone, E.J.4
Proud, C.G.5
Denton, R.M.6
-
40
-
-
33745208261
-
Interaction with Grb14 results in site-specific regulation of tyrosine phosphorylation of the insulin receptor
-
Nouaille, S., Blanquart, C., Zilberfarb, V., Boute, N., Perdereau, D., Roix, J., Burnol, A.-F., & Issad, T. (2006). Interaction with Grb14 results in site-specific regulation of tyrosine phosphorylation of the insulin receptor. EMBO Reports, 7, 512–518.
-
(2006)
EMBO Reports
, vol.7
, pp. 512-518
-
-
Nouaille, S.1
Blanquart, C.2
Zilberfarb, V.3
Boute, N.4
Perdereau, D.5
Roix, J.6
Burnol, A.-F.7
Issad, T.8
-
41
-
-
79960402456
-
A hierarchical whole-body modeling approach elucidates the link between in Vitro insulin signaling and in Vivo glucose homeostasis
-
Nyman, E., Brännmark, C., Palmér, R., Brugård, J., Nyström, F. H., Strålfors, P., & Cedersund, G. (2011). A hierarchical whole-body modeling approach elucidates the link between in Vitro insulin signaling and in Vivo glucose homeostasis. The Journal of Biological Chemistry, 286(29), 26028–26041. doi:10.1074/jbc.M110.188987.
-
(2011)
The Journal of Biological Chemistry
, vol.286
, Issue.29
, pp. 26028-26041
-
-
Nyman, E.1
Brännmark, C.2
Palmér, R.3
Brugård, J.4
Nyström, F.H.5
Strålfors, P.6
Cedersund, G.7
-
42
-
-
60949410291
-
A role for mathematics in the physical sciences
-
Pincock, C. (2007). A role for mathematics in the physical sciences. Noûs, 41(2), 253–275.
-
(2007)
Noûs
, vol.41
, Issue.2
, pp. 253-275
-
-
Pincock, C.1
-
43
-
-
0019222967
-
Insulin-treated 3T3-L1 adipocytes and cell-free extracts derived from them incorporate 32P into ribosomal protein S6
-
Smith, C., Rubin, C., & Rosen, O. (1980). Insulin-treated 3T3-L1 adipocytes and cell-free extracts derived from them incorporate 32P into ribosomal protein S6. PNAS, 77(5), 2641–2645.
-
(1980)
PNAS
, vol.77
, Issue.5
, pp. 2641-2645
-
-
Smith, C.1
Rubin, C.2
Rosen, O.3
-
44
-
-
0033957661
-
The PTEN tumor suppressor protein: An antagonist of phosphoinositide 3-kinase signaling
-
Vazquez, F., & Sellers, W. R. (2000). The PTEN tumor suppressor protein: an antagonist of phosphoinositide 3-kinase signaling. Biochimica et Biophysica Acta, 1470(1), M21.
-
(2000)
Biochimica Et Biophysica Acta
, vol.1470
, Issue.1
, pp. M21
-
-
Vazquez, F.1
Sellers, W.R.2
-
45
-
-
0042570843
-
Protein-protein interaction in insulin signaling and the molecular mechanisms of insulin resistance
-
Virkamäki, A., Ueki, K., & Kahn, C. R. (1999). Protein-protein interaction in insulin signaling and the molecular mechanisms of insulin resistance. Journal of Clinical Investigation, 103(7), 931–943.
-
(1999)
Journal of Clinical Investigation
, vol.103
, Issue.7
, pp. 931-943
-
-
Virkamäki, A.1
Ueki, K.2
Kahn, C.R.3
-
46
-
-
0037075690
-
Modelling and simulation: Tools for metabolic engineering
-
Wiekert, W. (2002). Modelling and simulation: Tools for metabolic engineering. Journal of Biotechnology, 94(1), 37–63.
-
(2002)
Journal of Biotechnology
, vol.94
, Issue.1
, pp. 37-63
-
-
Wiekert, W.1
|