Test: BIOMD0000000046.xml - Ok

test: BIOMD0000000046.xml
model: xml, reaction graph
plots: plot
comparison: comparison of simulators

Reaction graph

Note: downloaded from http://www.ebi.ac.uk/compneur-srv/biomodels/models-main/publ/BIOMD0000000046.gif

Plots

Note: downloaded from http://www.ebi.ac.uk/compneur-srv/biomodels/models-main/simu/MODEL6623265463.png

Comparison with other simulators

Legend:

Text color indicates difference between values:
  -  no significant difference ( < 0.1%)
  -  small relative error ( > 0.1% and <50%)
  -  simulation results significantly differ ( >50%)

Variables: H2O2  super  coII  coI  ArH  Ar  NADrad  NADH  coIII  O2  per2  per3 
Simulators: BioUML  ByoDyn  Jarnac  MathSBML  Oscill8 Core  SBToolbox2  SBWOdeSolver  VCell  copasi  edu.kgi.roadRunner  jsim 
timesimulation H2O2 super coII coI ArH Ar NADrad NADH coIII O2 per2 per3
var error var error var error var error var error var error var error var error var error var error var error var error
0.0 BioUML0,00000E00,000,00000E00,000,00000E00,000,00000E00,005,00000E20,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,001,40000E00,00
0.0 ByoDyn0,00000E00,000,00000E00,000,00000E00,000,00000E00,005,00000E20,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,001,40000E00,00
0.0 Jarnac0,00000E00,000,00000E00,000,00000E00,000,00000E00,005,00000E20,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,001,40000E00,00
0.0 MathSBML0,00000E00,000,00000E00,000,00000E00,000,00000E00,005,00000E20,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,001,40000E00,00
0.0 Oscill8 Core0,00000E00,000,00000E00,000,00000E00,000,00000E00,00 - - 0,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,00 - - 1,40000E00,00
0.0 SBToolbox20,00000E00,000,00000E00,000,00000E00,000,00000E00,005,00000E20,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,001,40000E00,00
0.0 SBWOdeSolver0,00000E00,000,00000E00,000,00000E00,000,00000E00,005,00000E20,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,001,40000E00,00
0.0 VCell0,00000E00,000,00000E00,000,00000E00,000,00000E00,005,00000E20,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,001,40000E00,00
0.0 copasi0,00000E00,000,00000E00,000,00000E00,000,00000E00,005,00000E20,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,001,40000E00,00
0.0 edu.kgi.roadRunner0,00000E00,000,00000E00,000,00000E00,000,00000E00,005,00000E20,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,001,40000E00,00
0.0 jsim0,00000E00,000,00000E00,000,00000E00,000,00000E00,005,00000E20,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,000,00000E00,001,40000E00,00
0.2 BioUML1,86801E-110,004,06655E-170,001,98059E-110,005,37100E-120,005,00000E20,002,42011E-110,008,60173E-150,001,60000E-20,002,27640E-170,001,43914E-20,006,35710E-160,001,40000E00,00
0.2 ByoDyn1,86801E-110,004,06656E-170,001,98052E-110,005,37169E-120,005,00000E20,002,42005E-110,008,60180E-150,001,60000E-20,002,27644E-170,001,43914E-20,006,35711E-160,001,40000E00,00
0.2 Jarnac1,86808E-110,003,93285E-170,001,98184E-110,005,37205E-120,005,00000E20,002,41585E-110,008,44148E-150,001,60000E-20,002,11669E-170,001,43914E-20,00-2,22045E-160,001,40000E00,00
0.2 MathSBML-1,98737E-101,16E39,10477E-200,002,39522E-1119,22,64860E-104,83E35,00000E20,002,40917E-110,003,97544E-1685,41,60000E-20,007,43280E-240,001,43914E-20,006,04866E-190,001,40000E00,00
0.2 Oscill8 Core1,86820E-110,004,17953E-170,001,98901E-110,005,37248E-120,00 - - 2,43645E-110,008,75678E-150,001,60000E-20,002,40141E-170,001,43914E-20,00 - - 1,40000E00,00
0.2 SBToolbox29,45730E-120,003,83054E-180,001,30465E-1134,12,77585E-1247,45,00000E20,001,78450E-1125,92,71615E-150,001,60000E-20,005,88981E-180,001,43916E-20,004,65818E-160,001,40000E00,00
0.2 SBWOdeSolver1,86814E-110,004,07161E-170,001,98094E-110,005,37214E-120,005,00000E20,002,42065E-110,008,60773E-150,001,60000E-20,002,28033E-170,001,43914E-20,006,36367E-160,001,40000E00,00
0.2 VCell1,86824E-110,004,09242E-170,001,98385E-110,005,37285E-120,005,00000E20,002,42529E-110,008,64040E-150,001,60000E-20,002,30089E-170,001,43914E-20,006,40891E-160,001,40000E00,00
0.2 copasi1,86778E-110,004,50105E-170,002,00974E-110,005,27699E-120,005,00000E20,002,46656E-111,29,05934E-150,001,60000E-20,002,74211E-170,001,43914E-20,007,65099E-160,001,40000E00,00
0.2 edu.kgi.roadRunner1,86801E-110,004,06656E-170,001,98052E-110,005,37169E-120,005,00000E20,002,42005E-110,008,60180E-150,001,60000E-20,002,25133E-170,001,43914E-20,00-1,32076E-150,001,40000E00,00
0.2 jsim1,86801E-110,004,06655E-170,001,98052E-110,005,37169E-120,005,00000E20,002,42005E-110,008,60180E-150,001,60000E-20,002,27644E-170,001,43914E-20,006,35711E-160,001,40000E00,00
0.4 BioUML9,00058E-110,005,69213E-150,002,01259E-100,002,81123E-110,005,00000E20,002,98641E-100,004,04698E-130,003,20000E-20,006,82961E-150,002,87655E-20,006,31966E-140,001,40000E00,00
0.4 ByoDyn9,00057E-110,005,69213E-150,002,01258E-100,002,81134E-110,005,00000E20,002,98640E-100,004,04698E-130,003,20000E-20,006,82961E-150,002,87655E-20,006,31966E-140,001,40000E00,00
0.4 Jarnac9,00065E-110,005,68386E-150,002,01287E-100,002,81138E-110,005,00000E20,002,98201E-100,004,04079E-130,003,20000E-20,006,81709E-150,002,87655E-20,006,41709E-140,001,40000E00,00
0.4 MathSBML-4,92214E-131019,96154E-1564,13,24094E-1060,41,79283E-110,005,00000E20,004,82037E-1059,76,54085E-1355,13,20000E-20,001,05811E-1430,62,87655E-20,009,91431E-1442,11,40000E00,00
0.4 Oscill8 Core9,00083E-110,005,70680E-150,002,01320E-100,002,81143E-110,00 - - 2,98865E-100,004,05435E-130,003,20000E-20,006,86738E-150,002,87655E-20,00 - - 1,40000E00,00
0.4 SBToolbox22,89618E-110,00-1,92650E-132,03E3-2,77214E-121018,69509E-1251,55,00000E20,00-3,00588E-10162-6,10399E-121,03E33,20000E-20,00-1,51418E-121,44E42,87653E-20,00-5,55350E-125,70E31,40000E00,00
0.4 SBWOdeSolver9,00083E-110,005,69489E-150,002,01273E-100,002,81142E-110,005,00000E20,002,98671E-100,004,04812E-130,003,20000E-20,006,83426E-150,002,87655E-20,006,32237E-140,001,40000E00,00
0.4 VCell9,00057E-110,005,69551E-150,002,01280E-100,002,81134E-110,005,00000E20,002,98711E-100,004,04888E-130,003,20000E-20,006,83662E-150,002,87655E-20,006,32552E-140,001,40000E00,00
0.4 copasi9,00056E-110,006,07119E-150,002,02104E-100,002,81120E-110,005,00000E20,003,01836E-100,004,21753E-130,003,20000E-20,008,10265E-150,002,87655E-20,006,97627E-140,001,40000E00,00
0.4 edu.kgi.roadRunner9,00057E-110,005,69213E-150,002,01258E-100,002,81134E-110,005,00000E20,002,98640E-100,004,04698E-130,003,20000E-20,006,82707E-150,002,87655E-20,005,39631E-140,001,40000E00,00
0.4 jsim9,00057E-110,005,69213E-150,002,01258E-100,002,81134E-110,005,00000E20,002,98640E-100,004,04698E-130,003,20000E-20,006,82961E-150,002,87655E-20,006,31966E-140,001,40000E00,00
0.6 BioUML2,15997E-100,008,51695E-140,006,91829E-100,006,92220E-110,005,00000E20,001,21820E-90,003,42056E-120,004,80000E-20,001,60045E-130,004,31223E-20,008,28700E-130,001,40000E00,00
0.6 ByoDyn2,15997E-100,008,51694E-140,006,91828E-100,006,92226E-110,005,00000E20,001,21820E-90,003,42056E-120,004,80000E-20,001,60045E-130,004,31223E-20,008,28700E-130,001,40000E00,00
0.6 Jarnac2,15999E-100,008,51249E-140,006,91894E-100,006,92233E-110,005,00000E20,001,21753E-90,003,41860E-120,004,80000E-20,001,60007E-130,004,31223E-20,008,28893E-130,001,40000E00,00
0.6 MathSBML2,19951E-101,81,07930E-1324,76,91360E-100,007,10365E-112,65,00000E20,001,32208E-98,14,14358E-1219,84,80000E-20,002,41078E-1341,94,31223E-20,001,16576E-1235,41,40000E00,00
0.6 Oscill8 Core2,16001E-100,008,52336E-140,006,91883E-100,006,92239E-110,00 - - 1,21849E-90,003,42240E-120,004,80000E-20,001,60297E-130,004,31223E-20,00 - - 1,40000E00,00
0.6 SBToolbox26,73347E-1168,8-3,35460E-134111,90842E-1072,42,20321E-1168,25,00000E20,003,00799E-1197,5-9,65441E-123334,80000E-20,00-2,66615E-121,21E34,31220E-20,00-9,10478E-128811,40000E00,00
0.6 SBWOdeSolver2,16001E-100,008,51932E-140,006,91857E-100,006,92239E-110,005,00000E20,001,21828E-90,003,42113E-120,004,80000E-20,001,60108E-130,004,31223E-20,008,28913E-130,001,40000E00,00
0.6 VCell2,15997E-100,008,51819E-140,006,91841E-100,006,92226E-110,005,00000E20,001,21828E-90,003,42098E-120,004,80000E-20,001,60087E-130,004,31223E-20,008,28909E-130,001,40000E00,00
0.6 copasi2,15997E-100,008,65578E-140,006,92279E-100,006,92211E-110,005,00000E20,001,22261E-90,003,45926E-120,004,80000E-20,001,69923E-130,004,31223E-20,008,61186E-130,001,40000E00,00
0.6 edu.kgi.roadRunner2,15997E-100,008,51694E-140,006,91828E-100,006,92226E-110,005,00000E20,001,21820E-90,003,42056E-120,004,80000E-20,001,60027E-130,004,31223E-20,008,02355E-130,001,40000E00,00
0.6 jsim2,15997E-100,008,51694E-140,006,91828E-100,006,92226E-110,005,00000E20,001,21820E-90,003,42056E-120,004,80000E-20,001,60045E-130,004,31223E-20,008,28700E-130,001,40000E00,00
0.8 BioUML3,96569E-100,005,33364E-130,001,58087E-90,001,28673E-100,005,00000E20,003,23483E-90,001,46705E-110,006,40000E-20,001,38119E-120,005,74620E-20,004,86934E-120,001,40000E00,00
0.8 ByoDyn3,96569E-100,005,33364E-130,001,58087E-90,001,28673E-100,005,00000E20,003,23483E-90,001,46705E-110,006,40000E-20,001,38119E-120,005,74620E-20,004,86934E-120,001,40000E00,00
0.8 Jarnac3,96572E-100,005,33233E-130,001,58100E-90,001,28674E-100,005,00000E20,003,23377E-90,001,46660E-110,006,40000E-20,001,38141E-120,005,74620E-20,004,87010E-120,001,40000E00,00
0.8 MathSBML3,74038E-100,006,16440E-1314,41,61845E-92,41,20423E-100,005,00000E20,003,38901E-94,61,61490E-119,56,40000E-20,001,99975E-1239,65,74620E-20,006,25624E-1225,81,40000E00,00
0.8 Oscill8 Core3,96574E-100,005,33551E-130,001,58093E-90,001,28675E-100,00 - - 3,23519E-90,001,46741E-110,006,40000E-20,001,38215E-120,005,74620E-20,00 - - 1,40000E00,00
0.8 SBToolbox22,02742E-1045,8-8,16513E-141138,91844E-1043,66,66934E-1144,65,00000E20,002,08478E-935,58,56040E-1394,26,40000E-20,00-7,44823E-131375,74617E-20,00-4,24495E-131071,40000E00,00
0.8 SBWOdeSolver3,96574E-100,005,33463E-130,001,58091E-90,001,28675E-100,005,00000E20,003,23497E-90,001,46721E-110,006,40000E-20,001,38156E-120,005,74620E-20,004,87019E-120,001,40000E00,00
0.8 VCell3,96569E-100,005,33393E-130,001,58088E-90,001,28673E-100,005,00000E20,003,23491E-90,001,46712E-110,006,40000E-20,001,38133E-120,005,74620E-20,004,86982E-120,001,40000E00,00
0.8 copasi3,96569E-100,005,38621E-130,001,58084E-90,001,28673E-100,005,00000E20,003,23933E-90,001,47513E-110,006,40000E-20,001,43210E-120,005,74620E-20,004,97333E-120,001,40000E00,00
0.8 edu.kgi.roadRunner3,96569E-100,005,33364E-130,001,58087E-90,001,28673E-100,005,00000E20,003,23483E-90,001,46705E-110,006,40000E-20,001,38114E-120,005,74620E-20,004,83289E-120,001,40000E00,00
0.8 jsim3,96569E-100,005,33364E-130,001,58087E-90,001,28673E-100,005,00000E20,003,23483E-90,001,46705E-110,006,40000E-20,001,38119E-120,005,74620E-20,004,86934E-120,001,40000E00,00
1.0 BioUML6,31625E-100,002,10050E-120,002,92113E-90,002,06433E-100,005,00000E20,006,82557E-90,004,36491E-110,008,00000E-20,006,99369E-120,007,17844E-20,001,85589E-110,001,40000E00,00
1.0 ByoDyn6,31625E-100,002,10050E-120,002,92113E-90,002,06432E-100,005,00000E20,006,82557E-90,004,36491E-110,008,00000E-20,006,99369E-120,007,17844E-20,001,85589E-110,001,40000E00,00
1.0 Jarnac6,31628E-100,002,10034E-120,002,92134E-90,002,06434E-100,005,00000E20,006,82405E-90,004,36435E-110,008,00000E-20,006,99585E-120,007,17844E-20,001,85605E-110,001,40000E00,00
1.0 MathSBML6,19578E-100,002,25070E-126,72,93911E-90,612,00108E-100,005,00000E20,006,96977E-92,04,57632E-114,68,00000E-20,008,98442E-1225,77,17844E-20,002,18691E-116,71,40000E00,00
1.0 Oscill8 Core6,31631E-100,002,10093E-120,002,92119E-90,002,06434E-100,00 - - 6,82603E-90,004,36551E-110,008,00000E-20,006,99642E-120,007,17844E-20,00 - - 1,40000E00,00
1.0 SBToolbox24,35175E-1029,85,68786E-1372,92,10024E-928,11,42675E-1028,75,00000E20,005,86357E-914,12,54274E-1141,78,00000E-20,004,24965E-1239,27,17845E-20,002,04871E-110,001,40000E00,00
1.0 SBWOdeSolver6,31631E-100,002,10078E-120,002,92119E-90,002,06434E-100,005,00000E20,006,82580E-90,004,36526E-110,008,00000E-20,006,99507E-120,007,17844E-20,001,85613E-110,001,40000E00,00
1.0 VCell6,31625E-100,002,10055E-120,002,92114E-90,002,06432E-100,005,00000E20,006,82566E-90,004,36500E-110,008,00000E-20,006,99401E-120,007,17844E-20,001,85598E-110,001,40000E00,00
1.0 copasi6,31625E-100,002,10998E-120,002,92082E-90,002,06434E-100,005,00000E20,006,83008E-90,004,37710E-110,008,00000E-20,007,14488E-120,007,17844E-20,001,87945E-110,001,40000E00,00
1.0 edu.kgi.roadRunner6,31625E-100,002,10050E-120,002,92113E-90,002,06432E-100,005,00000E20,006,82557E-90,004,36491E-110,008,00000E-20,006,99359E-120,007,17844E-20,001,85228E-110,191,40000E00,00
1.0 jsim6,31625E-100,002,10050E-120,002,92113E-90,002,06432E-100,005,00000E20,006,82557E-90,004,36491E-110,008,00000E-20,006,99369E-120,007,17844E-20,001,85589E-110,001,40000E00,00
1.2 BioUML9,21065E-100,006,20416E-120,004,74359E-90,003,02467E-100,005,00000E20,001,24734E-80,001,03307E-100,009,60000E-20,002,54271E-110,008,60897E-20,005,39395E-110,001,40000E00,00
1.2 ByoDyn9,21065E-100,006,20416E-120,004,74359E-90,003,02467E-100,005,00000E20,001,24734E-80,001,03307E-100,009,60000E-20,002,54271E-110,008,60897E-20,005,39395E-110,001,40000E00,00
1.2 Jarnac9,21067E-100,006,20368E-120,004,74384E-90,003,02468E-100,005,00000E20,001,24711E-80,001,03295E-100,009,60000E-20,002,54343E-110,008,60897E-20,005,39444E-110,001,40000E00,00
1.2 MathSBML9,21497E-100,006,36031E-122,44,73714E-90,003,02006E-100,005,00000E20,001,25924E-80,921,05489E-102,09,60000E-20,002,98283E-1116,18,60897E-20,005,99461E-1110,51,40000E00,00
1.2 Oscill8 Core9,21072E-100,006,20500E-120,004,74366E-90,003,02469E-100,00 - - 1,24739E-80,001,03316E-100,009,60000E-20,002,54335E-110,008,60897E-20,00 - - 1,40000E00,00
1.2 SBToolbox27,64650E-1017,01,61586E-1274,03,81603E-919,42,49986E-1017,25,00000E20,001,13661E-88,96,40594E-1138,09,59999E-20,001,23176E-1151,68,60901E-20,005,36305E-110,511,40000E00,00
1.2 SBWOdeSolver9,21072E-100,006,20479E-120,004,74365E-90,003,02469E-100,005,00000E20,001,24737E-80,001,03313E-100,009,60000E-20,002,54310E-110,008,60897E-20,005,39449E-110,001,40000E00,00
1.2 VCell9,21065E-100,006,20424E-120,004,74359E-90,003,02467E-100,005,00000E20,001,24735E-80,001,03308E-100,009,60000E-20,002,54278E-110,008,60897E-20,005,39409E-110,001,40000E00,00
1.2 copasi9,21065E-100,006,21033E-120,004,74349E-90,003,02466E-100,005,00000E20,001,24775E-80,001,03389E-100,009,60000E-20,002,56925E-110,008,60897E-20,005,42681E-110,001,40000E00,00
1.2 edu.kgi.roadRunner9,21065E-100,006,20416E-120,004,74359E-90,003,02467E-100,005,00000E20,001,24734E-80,001,03307E-100,009,60000E-20,002,54270E-110,008,60897E-20,005,39052E-110,001,40000E00,00
1.2 jsim9,21065E-100,006,20416E-120,004,74359E-90,003,02467E-100,005,00000E20,001,24734E-80,001,03307E-100,009,60000E-20,002,54271E-110,008,60897E-20,005,39395E-110,001,40000E00,00
1.4 BioUML1,26479E-90,001,50740E-110,007,06627E-90,004,16744E-100,005,00000E20,002,06540E-80,002,09128E-100,001,12000E-10,007,37922E-110,001,00378E-10,001,30220E-100,001,40000E00,00
1.4 ByoDyn1,26479E-90,001,50740E-110,007,06627E-90,004,16744E-100,005,00000E20,002,06540E-80,002,09128E-100,001,12000E-10,007,37923E-110,001,00378E-10,001,30220E-100,001,40000E00,00
1.4 Jarnac1,26479E-90,001,50730E-110,007,06654E-90,004,16745E-100,005,00000E20,002,06515E-80,002,09110E-100,001,12000E-10,007,38077E-110,001,00378E-10,001,30235E-100,001,40000E00,00
1.4 MathSBML1,26588E-90,001,51919E-110,757,05687E-90,004,17289E-100,135,00000E20,002,07597E-80,492,11440E-101,11,12000E-10,008,17002E-1110,21,00378E-10,001,39538E-106,91,40000E00,00
1.4 Oscill8 Core1,26480E-90,001,50755E-110,007,06635E-90,004,16747E-100,00 - - 2,06546E-80,002,09141E-100,001,12000E-10,007,38053E-110,001,00378E-10,00 - - 1,40000E00,00
1.4 SBToolbox21,14692E-99,31,96176E-1287,06,04860E-914,33,76373E-109,75,00000E20,001,84109E-810,81,24895E-1040,31,11998E-10,00-2,61083E-111321,00380E-10,006,78438E-1147,91,40000E00,00
1.4 SBWOdeSolver1,26480E-90,001,50752E-110,007,06635E-90,004,16747E-100,005,00000E20,002,06544E-80,002,09138E-100,001,12000E-10,007,38011E-110,001,00378E-10,001,30230E-100,001,40000E00,00
1.4 VCell1,26479E-90,001,50741E-110,007,06627E-90,004,16744E-100,005,00000E20,002,06540E-80,002,09129E-100,001,12000E-10,007,37933E-110,001,00378E-10,001,30222E-100,001,40000E00,00
1.4 copasi1,26479E-90,001,50790E-110,007,06642E-90,004,16744E-100,005,00000E20,002,06578E-80,002,09160E-100,001,12000E-10,007,41239E-110,001,00378E-10,001,30548E-100,001,40000E00,00
1.4 edu.kgi.roadRunner1,26479E-90,001,50740E-110,007,06627E-90,004,16744E-100,005,00000E20,002,06540E-80,002,09128E-100,001,12000E-10,007,37920E-110,001,00378E-10,001,30185E-100,001,40000E00,00
1.4 jsim1,26479E-90,001,50740E-110,007,06627E-90,004,16744E-100,005,00000E20,002,06540E-80,002,09128E-100,001,12000E-10,007,37923E-110,001,00378E-10,001,30220E-100,001,40000E00,