-
2
-
-
77956172829
-
Teranode design suite
-
Teranode design suite. , http://www.gerbsmanpartners.com/email120.html
-
-
-
-
3
-
-
77956172709
-
COPASI - software for simulation and modeling of biochemical networks
-
COPASI - software for simulation and modeling of biochemical networks. , http://www.copasi.org
-
-
-
-
4
-
-
33746143171
-
Visualisation of biochemical network simulations with SimWiz
-
Rost U, Kummer U. Visualisation of biochemical network simulations with SimWiz. Systems Biology, IEE Proceedings 2004, 1:184-189.
-
(2004)
Systems Biology, IEE Proceedings
, vol.1
, pp. 184-189
-
-
Rost, U.1
Kummer, U.2
-
5
-
-
0032825010
-
Mathematical simulation and analysis of cellular metabolism and regulation
-
10.1093/bioinformatics/15.9.749, 10498775
-
Goryanin I, Hodgman C, Selkov E. Mathematical simulation and analysis of cellular metabolism and regulation. Bioinformatics 1999, 15:749-758. 10.1093/bioinformatics/15.9.749, 10498775.
-
(1999)
Bioinformatics
, vol.15
, pp. 749-758
-
-
Goryanin, I.1
Hodgman, C.2
Selkov, E.3
-
6
-
-
0037342537
-
The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models
-
10.1093/bioinformatics/btg015, 12611808
-
Hucka M, Finney A, Sauro HM, Bolouri H, Doyle JC, Kitano H. The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models. Bioinformatics 2003, 19:524-31. 10.1093/bioinformatics/btg015, 12611808.
-
(2003)
Bioinformatics
, vol.19
, pp. 524-531
-
-
Hucka, M.1
Finney, A.2
Sauro, H.M.3
Bolouri, H.4
Doyle, J.C.5
Kitano, H.6
-
7
-
-
77956177833
-
GNU parser generator
-
GNU parser generator. , http://www.gnu.org/software/bison/
-
-
-
-
8
-
-
77956174250
-
A fast lexical analyzer generator
-
A fast lexical analyzer generator. , http://flex.sourceforge.net/
-
-
-
-
9
-
-
0001811061
-
A systematized collection of ODE solvers. Scientific Computing
-
Hindmarsh AC. A systematized collection of ODE solvers. Scientific Computing. North Holland 1983, 1:55-64.
-
(1983)
North Holland
, vol.1
, pp. 55-64
-
-
Hindmarsh, A.C.1
-
10
-
-
4544313738
-
Continuation techniques and interactive software for bifurcation analysis of ODEs and iterated maps
-
Khibnik A, Kuznetsov Y, Levitin V, Nikolaev E. Continuation techniques and interactive software for bifurcation analysis of ODEs and iterated maps. Physica D 1993, 62:360-370.
-
(1993)
Physica D
, vol.62
, pp. 360-370
-
-
Khibnik, A.1
Kuznetsov, Y.2
Levitin, V.3
Nikolaev, E.4
-
11
-
-
84944978720
-
Nonlinear Oscillations, Dynamical Systems, Bifurcations of Vector Fields
-
Guckenheimer J, Holmes P. Nonlinear Oscillations, Dynamical Systems, Bifurcations of Vector Fields. Springer-Verlag 1983,
-
(1983)
Springer-Verlag
-
-
Guckenheimer, J.1
Holmes, P.2
-
12
-
-
84938447945
-
Direct search solution of numerical and statistical problems
-
Hooke R, Jeeves TA. Direct search solution of numerical and statistical problems. J Ass Comput Mach 8:212-229.
-
J Ass Comput Mach
, vol.8
, pp. 212-229
-
-
Hooke, R.1
Jeeves, T.A.2
-
13
-
-
0000873069
-
A method of solution of certain nonlinear problems in least squares
-
Levenberg K. A method of solution of certain nonlinear problems in least squares. Q Appl Math 1944, 2:164-168.
-
(1944)
Q Appl Math
, vol.2
, pp. 164-168
-
-
Levenberg, K.1
-
14
-
-
0000169232
-
An algorithm for least square estimation of non-linear parameters
-
Marquardt DW. An algorithm for least square estimation of non-linear parameters. SIAM J 1963, 11:431-441.
-
(1963)
SIAM J
, vol.11
, pp. 431-441
-
-
Marquardt, D.W.1
-
15
-
-
77956176433
-
Chart component for Borland Builder
-
Chart component for Borland Builder. , http://www.steema.com
-
-
-
-
16
-
-
77956174903
-
2D and 3D Graphics library
-
2D and 3D Graphics library. , http://www.opengl.org
-
-
-
-
17
-
-
77956178145
-
XML schema of the DBSolve Optimum static map xml file
-
XML schema of the DBSolve Optimum static map xml file. , http://biokinetics.ru/images/dbsolve/glShema.xsd
-
-
-
-
18
-
-
0027178664
-
SCAMP: a generalpurpose simulator and metabolic control analysis program
-
Sauro HM. SCAMP: a generalpurpose simulator and metabolic control analysis program. Comp Appl Biosci 1993, 9:441-450.
-
(1993)
Comp Appl Biosci
, vol.9
, pp. 441-450
-
-
Sauro, H.M.1
-
19
-
-
84885687318
-
The Institute for Systems Biology SPb
-
The Institute for Systems Biology SPb. , http://www.insysbio.ru
-
-
-
-
21
-
-
77956178386
-
NetSolve: integrated development environment software for metabolic and enzymatic systems modeling
-
Westerhoff HV, Snoep JL, Sluse FE, Wijker JE, Holodenko BN
-
Goryanin I. NetSolve: integrated development environment software for metabolic and enzymatic systems modeling. Biothermokinetics of the Living Cell: 1996; Amsterdam 1996, 252-254. Westerhoff HV, Snoep JL, Sluse FE, Wijker JE, Holodenko BN.
-
(1996)
Biothermokinetics of the Living Cell: 1996; Amsterdam
, pp. 252-254
-
-
Goryanin, I.1
-
23
-
-
77956180750
-
Kinetic modeling of E. coli enzymes: integration of in vitro data
-
Netherlands: Springer, Sang Yup Lee
-
Mogilevskaya E, Peskov K, Metelkin E, Plyusnina T, Lebedeva G, Goryanin I, Demin O. Kinetic modeling of E. coli enzymes: integration of in vitro data. Systems Biology and Biotechnology of Esherichia coli 2009, 177-207. Netherlands: Springer, Sang Yup Lee.
-
(2009)
Systems Biology and Biotechnology of Esherichia coli
, pp. 177-207
-
-
Mogilevskaya, E.1
Peskov, K.2
Metelkin, E.3
Plyusnina, T.4
Lebedeva, G.5
Goryanin, I.6
Demin, O.7
-
24
-
-
70449720998
-
Modeling of ATP-ADP steady-state exchange rate mediated by the adenine nucleotide translocase in isolated mitochondria
-
10.1111/j.1742-4658.2009.07394.x, 19860824
-
Metelkin E, Demin O, Kovecs Z, Christos C. Modeling of ATP-ADP steady-state exchange rate mediated by the adenine nucleotide translocase in isolated mitochondria. FEBS J 2009, 276:6942-6955. 10.1111/j.1742-4658.2009.07394.x, 19860824.
-
(2009)
FEBS J
, vol.276
, pp. 6942-6955
-
-
Metelkin, E.1
Demin, O.2
Kovecs, Z.3
Christos, C.4
-
25
-
-
0037039289
-
Temperature dependence of the epidermal growth factor receptor signaling network can be accounted for by a kinetic model
-
10.1021/bi011506c, 11772030
-
Moehren G, Markevic N, Demin OV, Kiyatkin A, Goryain I, Kholodenko BN. Temperature dependence of the epidermal growth factor receptor signaling network can be accounted for by a kinetic model. Biochemistry 2002, 41:306-320. 10.1021/bi011506c, 11772030.
-
(2002)
Biochemistry
, vol.41
, pp. 306-320
-
-
Moehren, G.1
Markevic, N.2
Demin, O.V.3
Kiyatkin, A.4
Goryain, I.5
Kholodenko, B.N.6
-
26
-
-
23244446113
-
Signal processing at the ras circuit: what shapes ras activation patterns?
-
10.1049/sb:20045003, 17052120
-
Markevich NI, Moehren G, Demin OV, Kiyatkin A, Hoek JB, Kholodenko BN. Signal processing at the ras circuit: what shapes ras activation patterns?. Systems Biology 2004, 1:104-113. 10.1049/sb:20045003, 17052120.
-
(2004)
Systems Biology
, vol.1
, pp. 104-113
-
-
Markevich, N.I.1
Moehren, G.2
Demin, O.V.3
Kiyatkin, A.4
Hoek, J.B.5
Kholodenko, B.N.6
-
27
-
-
58149136055
-
Kinetic modelling of NSAID action on COX-1: focus on in vitro/in vivo aspects and drug combinations
-
Goltsov A, Maryashkin A, Swat M, Kosinsky Y, Humphery-Smith I, Goryanin I, Lebedeva G. Kinetic modelling of NSAID action on COX-1: focus on in vitro/in vivo aspects and drug combinations. Europ J Pharmac Sciences 2009, 36:122-136.
-
(2009)
Europ J Pharmac Sciences
, vol.36
, pp. 122-136
-
-
Goltsov, A.1
Maryashkin, A.2
Swat, M.3
Kosinsky, Y.4
Humphery-Smith, I.5
Goryanin, I.6
Lebedeva, G.7
-
28
-
-
33749079388
-
Cellular kinetic modeling of the microbial metabolism
-
Goryanin II, Lebedeva GV, Mogilevskaya EA, Metelkin EA, Demin OV. Cellular kinetic modeling of the microbial metabolism. Methods Biochem Anal 2006, 49:437-488.
-
(2006)
Methods Biochem Anal
, vol.49
, pp. 437-488
-
-
Goryanin, I.I.1
Lebedeva, G.V.2
Mogilevskaya, E.A.3
Metelkin, E.A.4
Demin, O.V.5
-
29
-
-
0041783609
-
Regulatory levels of photosynthetic processes
-
Riznichenko GY, Lebedeva GV, Demin OV, Rubin AB. Regulatory levels of photosynthetic processes. Biophysics 2000, 45:452-460.
-
(2000)
Biophysics
, vol.45
, pp. 452-460
-
-
Riznichenko, G.Y.1
Lebedeva, G.V.2
Demin, O.V.3
Rubin, A.B.4
-
30
-
-
77956172394
-
Kinetic model of photosystem II of high plants
-
Lebedeva GV, Belyaeva NE, Riznichenko GY, Rubin AB, Demin OV. Kinetic model of photosystem II of high plants. J Physical Chemistry 2000, 74:1897-1906.
-
(2000)
J Physical Chemistry
, vol.74
, pp. 1897-1906
-
-
Lebedeva, G.V.1
Belyaeva, N.E.2
Riznichenko, G.Y.3
Rubin, A.B.4
Demin, O.V.5
-
31
-
-
77956169907
-
Applications of Whole Cell and Large Pathway Mathematical Models in the Pharmaceutical Industry
-
Horison Bioscience, Kholodenko B, Westerhoff H
-
Goryanin II, Demin OV, Tobin F. Applications of Whole Cell and Large Pathway Mathematical Models in the Pharmaceutical Industry. Metabolic Engineering in the Post Genomic Era: 2003; UK 2003, 103-129. Horison Bioscience, Kholodenko B, Westerhoff H.
-
(2003)
Metabolic Engineering in the Post Genomic Era: 2003; UK
, pp. 103-129
-
-
Goryanin, I.I.1
Demin, O.V.2
Tobin, F.3
-
32
-
-
33750544499
-
The kinetic model of the shikimate pathway as a tool to optimize enzyme assays for high-throughput screening
-
10.1002/bit.20772, 16921527
-
Noble M, Sinha Y, Kolupaev A, Demin O, Earnshaw D, Tobin F, West J, Martin JD, Qiu C, Liu WS, DeWolf JWE, Tew D, Goryanin II. The kinetic model of the shikimate pathway as a tool to optimize enzyme assays for high-throughput screening. Biotechnology and Bioengineering 2006, 95:560-571. 10.1002/bit.20772, 16921527.
-
(2006)
Biotechnology and Bioengineering
, vol.95
, pp. 560-571
-
-
Noble, M.1
Sinha, Y.2
Kolupaev, A.3
Demin, O.4
Earnshaw, D.5
Tobin, F.6
West, J.7
Martin, J.D.8
Qiu, C.9
Liu, W.S.10
DeWolf, J.W.E.11
Tew, D.12
Goryanin, I.I.13
-
33
-
-
54949098565
-
Kinetic Modeling of ace operon genetic regulation in Escherichia coli
-
Peskov K, Goryanin I, Prank K, Tobin F, Demin O. Kinetic Modeling of ace operon genetic regulation in Escherichia coli. J Bioinform Comput Biol 2008, 65:933-959.
-
(2008)
J Bioinform Comput Biol
, vol.65
, pp. 933-959
-
-
Peskov, K.1
Goryanin, I.2
Prank, K.3
Tobin, F.4
Demin, O.5
-
34
-
-
58049195553
-
Optimization of antimicrobial drug gramicidin S dosing regime using biosimulations
-
Smirnov S, Belashov A, Demin O. Optimization of antimicrobial drug gramicidin S dosing regime using biosimulations. Europ J Pharmac Sciences 2009, 36:105-109.
-
(2009)
Europ J Pharmac Sciences
, vol.36
, pp. 105-109
-
-
Smirnov, S.1
Belashov, A.2
Demin, O.3
-
35
-
-
34548864752
-
Kinetic Model of Mitochondrial Krebs Cycle: Unraveling the Mechanism of Salicylate Hepatotoxic Effects
-
10.1007/s10867-006-9015-y, 2651525, 19669466
-
Mogilevskaya E, Demin O, Goryanin I. Kinetic Model of Mitochondrial Krebs Cycle: Unraveling the Mechanism of Salicylate Hepatotoxic Effects. Journal of Biological Physics 2006, 32:245-271. 10.1007/s10867-006-9015-y, 2651525, 19669466.
-
(2006)
Journal of Biological Physics
, vol.32
, pp. 245-271
-
-
Mogilevskaya, E.1
Demin, O.2
Goryanin, I.3
-
36
-
-
84872261630
-
The systems biology markup language site
-
The systems biology markup language site. , http://www.sbml.org
-
-
-
-
37
-
-
33646172301
-
Mathematical modeling of mitochondrial adenine nucleotide translocase
-
10.1529/biophysj.105.061986, 1367049, 16239329
-
Metelkin E, Goryanin I, Demin O. Mathematical modeling of mitochondrial adenine nucleotide translocase. Biophys J 2006, 90:423-432. 10.1529/biophysj.105.061986, 1367049, 16239329.
-
(2006)
Biophys J
, vol.90
, pp. 423-432
-
-
Metelkin, E.1
Goryanin, I.2
Demin, O.3
-
38
-
-
51749105256
-
Kinetic Model of Phosphofructokinase-1 from Escherichia coli
-
10.1142/S0219720008003643, 18763746
-
Peskov K, Goryanin I, Demin O. Kinetic Model of Phosphofructokinase-1 from Escherichia coli. J Bioinform Comput Biol 2008, 6:843-67. 10.1142/S0219720008003643, 18763746.
-
(2008)
J Bioinform Comput Biol
, vol.6
, pp. 843-867
-
-
Peskov, K.1
Goryanin, I.2
Demin, O.3
-
39
-
-
33845368513
-
COPASI a COmplex PAthway Simulator
-
10.1093/bioinformatics/btl485, 17032683
-
Hoops S, Sahle S, Gauges R, Lee C, Pahle J, Simus N, Singhal M, Xu L, Mendes P, Kummer U. COPASI a COmplex PAthway Simulator. Bioinformatics 2006, 22:3067-3074. 10.1093/bioinformatics/btl485, 17032683.
-
(2006)
Bioinformatics
, vol.22
, pp. 3067-3074
-
-
Hoops, S.1
Sahle, S.2
Gauges, R.3
Lee, C.4
Pahle, J.5
Simus, N.6
Singhal, M.7
Xu, L.8
Mendes, P.9
Kummer, U.10
-
40
-
-
77956177783
-
Example of (XML and PLT) visualization files can be found in DBSolve Optimum distribution using followng path from root of installation folder "Institute for Systems Biology Spb\DBSolve\Player\Examples\"
-
Example of (XML and PLT) visualization files can be found in DBSolve Optimum distribution using followng path from root of installation folder "Institute for Systems Biology Spb\DBSolve\Player\Examples\". , http://biokinetics.ru/images/dbsolve/DBSolveOptimum.zip
-
-
-
-
41
-
-
77956179119
-
Free software application allow to run Windows applications on Unix-like computers
-
Free software application allow to run Windows applications on Unix-like computers. , http://www.winehq.org/
-
-
-
-
42
-
-
77956177465
-
DBSolve Optimum installation package incudes DBSolve Optimum, user manual, examples of knetic models and aimation of simulation results. This installation package can be dowloaded at
-
DBSolve Optimum installation package incudes DBSolve Optimum, user manual, examples of knetic models and aimation of simulation results. This installation package can be dowloaded at. , http://biokinetics.ru/images/dbsolve/DBSolveOptimum.zip
-
-
-
-
43
-
-
77956173611
-
DBSolve Optimum license
-
DBSolve Optimum license. , http://biokinetics.ru/images/dbsolve/license/license
-
-
-
|