Test: BIOMD0000000057.xml - Ok

test: BIOMD0000000057.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/BIOMD0000000057.gif

Plots

Note: downloaded from http://www.ebi.ac.uk/compneur-srv/biomodels/models-main/simu/MODEL9098147664.JPG

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: A  Phi_minus2  Phi5  I1  O  Phi_minus4  I2  Phi3  Phi4  Phi1  Phi2  S  R  open_probability 
Simulators: BioUML  ByoDyn  MathSBML  Oscill8 Core  SBToolbox2  SBWOdeSolver  VCell  copasi  edu.kgi.roadRunner  jsim 
timesimulation A Phi_minus2 Phi5 I1 O Phi_minus4 I2 Phi3 Phi4 Phi1 Phi2 S R open_probability
var error var error 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 BioUML0,00000E00,002,23196E10,001,75573E00,000,00000E00,000,00000E00,001,41581E-10,000,00000E00,009,29985E-20,007,61329E20,003,05712E-10,001,48121E00,000,00000E00,001,00000E00,000,00000E00,00
0.0 ByoDyn0,00000E00,002,23196E10,001,75573E00,000,00000E00,000,00000E00,001,41581E-10,000,00000E00,009,29985E-20,007,61329E20,003,05712E-10,001,48121E00,000,00000E00,001,00000E00,000,00000E00,00
0.0 MathSBML0,00000E00,00 - - - - 0,00000E00,000,00000E00,00 - - 0,00000E00,00 - - - - - - - - 0,00000E00,001,00000E00,00 - -
0.0 Oscill8 Core0,00000E00,00 - - - - 0,00000E00,000,00000E00,00 - - - - - - - - - - - - 0,00000E00,001,00000E00,00 - -
0.0 SBToolbox20,00000E00,002,23200E10,001,75570E00,000,00000E00,000,00000E00,001,41580E-10,000,00000E00,009,29980E-20,007,61330E20,003,05710E-10,001,48120E00,000,00000E00,001,00000E00,000,00000E00,00
0.0 SBWOdeSolver0,00000E00,00 - - - - 0,00000E00,000,00000E00,00 - - 0,00000E00,00 - - - - - - - - 0,00000E00,001,00000E00,00 - -
0.0 VCell0,00000E00,00 - - - - 0,00000E00,000,00000E00,00 - - 0,00000E00,00 - - - - - - - - 0,00000E00,001,00000E00,00 - -
0.0 copasi0,00000E00,00 - - - - 0,00000E00,000,00000E00,00 - - 0,00000E00,00 - - - - - - - - 0,00000E00,001,00000E00,00 - -
0.0 edu.kgi.roadRunner0,00000E00,00 - - - - 0,00000E00,000,00000E00,00 - - 0,00000E00,00 - - - - - - - - 0,00000E00,001,00000E00,00 - -
0.0 jsim0,00000E00,002,23196E10,001,75573E00,000,00000E00,000,00000E00,001,41581E-10,000,00000E00,009,29984E-20,007,61329E20,003,05712E-10,001,48121E00,000,00000E00,001,00000E00,000,00000E00,00
0.2 BioUML7,37519E-10,002,23196E10,001,75573E00,001,75152E-20,001,17333E-30,001,41581E-10,001,89778E-10,009,29985E-20,007,61329E20,003,05712E-10,001,48121E00,006,43075E-60,005,40081E-20,001,94254E-10,00
0.2 ByoDyn7,37519E-10,002,23196E10,001,75573E00,001,75152E-20,001,17333E-30,001,41581E-10,001,89778E-10,009,29985E-20,007,61329E20,003,05712E-10,001,48121E00,006,43075E-60,005,40081E-20,001,94254E-10,00
0.2 MathSBML7,37519E-10,00 - - - - 1,75152E-20,001,17333E-30,00 - - 1,89778E-10,00 - - - - - - - - 6,43075E-60,005,40081E-20,00 - -
0.2 Oscill8 Core0,00000E0100 - - - - 0,00000E01000,00000E0100 - - - - - - - - - - - - 0,00000E01001,00000E01,75E3 - -
0.2 SBToolbox27,37820E-10,002,23200E10,001,75570E00,001,75214E-20,001,16802E-30,001,41580E-10,001,89751E-10,009,29980E-20,007,61330E20,003,05710E-10,001,48120E00,006,41230E-60,005,37315E-20,511,94574E-10,16
0.2 SBWOdeSolver7,37510E-10,00 - - - - 1,75150E-20,001,17353E-30,00 - - 1,89777E-10,00 - - - - - - - - 6,43176E-60,005,40187E-20,00 - -
0.2 VCell7,37519E-10,00 - - - - 1,75152E-20,001,17333E-30,00 - - 1,89778E-10,00 - - - - - - - - 6,43075E-60,005,40081E-20,00 - -
0.2 copasi7,37519E-10,00 - - - - 1,75152E-20,001,17333E-30,00 - - 1,89778E-10,00 - - - - - - - - 6,43077E-60,005,40083E-20,00 - -
0.2 edu.kgi.roadRunner7,37519E-10,00 - - - - 1,75152E-20,001,17333E-30,00 - - 1,89778E-10,00 - - - - - - - - 6,43075E-60,005,40081E-20,00 - -
0.2 jsim7,37519E-10,002,23196E10,001,75573E00,001,75152E-20,001,17321E-30,001,41581E-10,001,89778E-10,009,29984E-20,007,61329E20,003,05712E-10,001,48121E00,006,43077E-60,005,40081E-20,001,94254E-10,00
0.4 BioUML6,02448E-10,002,23196E10,001,75573E00,001,57964E-20,001,84116E-40,001,41581E-10,003,77651E-10,009,29985E-20,007,61329E20,003,05712E-10,001,48121E00,007,52092E-70,003,91916E-30,008,64388E-20,00
0.4 ByoDyn6,02448E-10,002,23196E10,001,75573E00,001,57964E-20,001,84116E-40,001,41581E-10,003,77651E-10,009,29985E-20,007,61329E20,003,05712E-10,001,48121E00,007,52092E-70,003,91916E-30,008,64388E-20,00
0.4 MathSBML6,02448E-10,00 - - - - 1,57964E-20,001,84116E-40,00 - - 3,77651E-10,00 - - - - - - - - 7,52095E-70,003,91918E-30,00 - -
0.4 Oscill8 Core0,00000E0100 - - - - 0,00000E01000,00000E0100 - - - - - - - - - - - - 0,00000E01001,00000E02,54E4 - -
0.4 SBToolbox26,02477E-10,002,23200E10,001,75570E00,001,57968E-20,001,83431E-40,001,41580E-10,003,77660E-10,009,29980E-20,007,61330E20,003,05710E-10,001,48120E00,007,47971E-70,003,88341E-30,918,64554E-20,00
0.4 SBWOdeSolver6,02451E-10,00 - - - - 1,57964E-20,001,84137E-40,00 - - 3,77648E-10,00 - - - - - - - - 7,52223E-70,003,92026E-30,00 - -
0.4 VCell6,02448E-10,00 - - - - 1,57964E-20,001,84116E-40,00 - - 3,77651E-10,00 - - - - - - - - 7,52092E-70,003,91916E-30,00 - -
0.4 copasi6,02448E-10,00 - - - - 1,57964E-20,001,84116E-40,00 - - 3,77651E-10,00 - - - - - - - - 7,52095E-70,003,91918E-30,00 - -
0.4 edu.kgi.roadRunner6,02448E-10,00 - - - - 1,57964E-20,001,84116E-40,00 - - 3,77651E-10,00 - - - - - - - - 7,52092E-70,003,91916E-30,00 - -
0.4 jsim6,02449E-10,002,23196E10,001,75573E00,001,57964E-20,001,84029E-40,001,41581E-10,003,77651E-10,009,29984E-20,007,61329E20,003,05712E-10,001,48121E00,007,52103E-70,003,91916E-30,008,64388E-20,00
0.6 BioUML4,91203E-10,002,23196E10,001,75573E00,001,34609E-20,001,09830E-40,001,41581E-10,004,94119E-10,009,29985E-20,007,61329E20,003,05712E-10,001,48121E00,003,61977E-70,001,10633E-30,003,81996E-20,00
0.6 ByoDyn4,91203E-10,002,23196E10,001,75573E00,001,34609E-20,001,09830E-40,001,41581E-10,004,94119E-10,009,29985E-20,007,61329E20,003,05712E-10,001,48121E00,003,61977E-70,001,10633E-30,003,81996E-20,00
0.6 MathSBML4,91203E-10,00 - - - - 1,34609E-20,001,09830E-40,00 - - 4,94119E-10,00 - - - - - - - - 3,61978E-70,001,10633E-30,00 - -
0.6 Oscill8 Core0,00000E0100 - - - - 0,00000E01000,00000E0100 - - - - - - - - - - - - 0,00000E01001,00000E09,03E4 - -
0.6 SBToolbox24,91183E-10,002,23200E10,001,75570E00,001,34606E-20,001,09753E-40,001,41580E-10,004,94138E-10,009,29980E-20,007,61330E20,003,05710E-10,001,48120E00,003,61522E-70,001,10253E-30,343,81957E-20,00
0.6 SBWOdeSolver4,91207E-10,00 - - - - 1,34609E-20,001,09832E-40,00 - - 4,94116E-10,00 - - - - - - - - 3,61989E-70,001,10642E-30,00 - -
0.6 VCell4,91203E-10,00 - - - - 1,34609E-20,001,09830E-40,00 - - 4,94119E-10,00 - - - - - - - - 3,61977E-70,001,10633E-30,00 - -
0.6 copasi4,91203E-10,00 - - - - 1,34609E-20,001,09830E-40,00 - - 4,94119E-10,00 - - - - - - - - 3,61978E-70,001,10633E-30,00 - -
0.6 edu.kgi.roadRunner4,91203E-10,00 - - - - 1,34609E-20,001,09830E-40,00 - - 4,94119E-10,00 - - - - - - - - 3,61977E-70,001,10633E-30,00 - -
0.6 jsim4,91203E-10,002,23196E10,001,75573E00,001,34608E-20,001,09745E-40,001,41581E-10,004,94119E-10,009,29984E-20,007,61329E20,003,05712E-10,001,48121E00,003,61988E-70,001,10633E-30,003,81996E-20,00
0.8 BioUML4,23377E-10,002,23196E10,001,75573E00,001,14314E-20,009,21041E-50,001,41581E-10,005,64277E-10,009,29985E-20,007,61329E20,003,05712E-10,001,48121E00,002,94616E-70,008,21853E-40,002,10825E-20,00
0.8 ByoDyn4,23377E-10,002,23196E10,001,75573E00,001,14314E-20,009,21041E-50,001,41581E-10,005,64277E-10,009,29985E-20,007,61329E20,003,05712E-10,001,48121E00,002,94616E-70,008,21853E-40,002,10825E-20,00
0.8 MathSBML4,23377E-10,00 - - - - 1,14314E-20,009,21046E-50,00 - - 5,64277E-10,00 - - - - - - - - 2,94617E-70,008,21860E-40,00 - -
0.8 Oscill8 Core0,00000E0100 - - - - 0,00000E01000,00000E0100 - - - - - - - - - - - - 0,00000E01001,00000E01,22E5 - -
0.8 SBToolbox24,23330E-10,002,23200E10,001,75570E00,001,14315E-20,009,20829E-50,001,41580E-10,005,64322E-10,009,29980E-20,007,61330E20,003,05710E-10,001,48120E00,002,94513E-70,008,21170E-40,002,10741E-20,00
0.8 SBWOdeSolver4,23380E-10,00 - - - - 1,14314E-20,009,21048E-50,00 - - 5,64275E-10,00 - - - - - - - - 2,94619E-70,008,21862E-40,00 - -
0.8 VCell4,23377E-10,00 - - - - 1,14314E-20,009,21041E-50,00 - - 5,64277E-10,00 - - - - - - - - 2,94616E-70,008,21853E-40,00 - -
0.8 copasi4,23377E-10,00 - - - - 1,14314E-20,009,21041E-50,00 - - 5,64277E-10,00 - - - - - - - - 2,94616E-70,008,21854E-40,00 - -
0.8 edu.kgi.roadRunner4,23377E-10,00 - - - - 1,14314E-20,009,21041E-50,00 - - 5,64277E-10,00 - - - - - - - - 2,94616E-70,008,21853E-40,00 - -
0.8 jsim4,23377E-10,002,23196E10,001,75573E00,001,14314E-20,009,20206E-50,001,41581E-10,005,64277E-10,009,29984E-20,007,61329E20,003,05712E-10,001,48121E00,002,94626E-70,008,21856E-40,002,10825E-20,00
1.0 BioUML3,82932E-10,002,23196E10,001,75573E00,009,70601E-30,008,23987E-50,001,41581E-10,006,06583E-10,009,29985E-20,007,61329E20,003,05712E-10,001,48121E00,002,61469E-70,006,96555E-40,001,41090E-20,00
1.0 ByoDyn3,82932E-10,002,23196E10,001,75573E00,009,70601E-30,008,23987E-50,001,41581E-10,006,06583E-10,009,29985E-20,007,61329E20,003,05712E-10,001,48121E00,002,61469E-70,006,96555E-40,001,41090E-20,00
1.0 MathSBML3,82932E-10,00 - - - - 9,70601E-30,008,23988E-50,00 - - 6,06583E-10,00 - - - - - - - - 2,61470E-70,006,96560E-40,00 - -
1.0 Oscill8 Core0,00000E0100 - - - - 0,00000E01000,00000E0100 - - - - - - - - - - - - 0,00000E01001,00000E01,43E5 - -
1.0 SBToolbox23,82826E-10,002,23200E10,001,75570E00,009,70547E-30,008,23745E-50,001,41580E-10,006,06695E-10,009,29980E-20,007,61330E20,003,05710E-10,001,48120E00,002,61380E-70,006,96329E-40,001,40931E-20,11
1.0 SBWOdeSolver3,82934E-10,00 - - - - 9,70604E-30,008,23991E-50,00 - - 6,06581E-10,00 - - - - - - - - 2,61471E-70,006,96558E-40,00 - -
1.0 VCell3,82932E-10,00 - - - - 9,70601E-30,008,23987E-50,00 - - 6,06583E-10,00 - - - - - - - - 2,61469E-70,006,96555E-40,00 - -
1.0 copasi3,82932E-10,00 - - - - 9,70601E-30,008,23987E-50,00 - - 6,06583E-10,00 - - - - - - - - 2,61470E-70,006,96556E-40,00 - -
1.0 edu.kgi.roadRunner3,82932E-10,00 - - - - 9,70601E-30,008,23987E-50,00 - - 6,06583E-10,00 - - - - - - - - 2,61469E-70,006,96555E-40,00 - -
1.0 jsim3,82932E-10,002,23196E10,001,75573E00,009,70601E-30,008,23160E-50,001,41581E-10,006,06583E-10,009,29984E-20,007,61329E20,003,05712E-10,001,48121E00,002,61480E-70,006,96558E-40,001,41090E-20,00
1.2 BioUML3,58862E-10,002,23196E10,001,75573E00,008,24131E-30,007,61977E-50,001,41581E-10,006,32221E-10,009,29985E-20,007,61329E20,003,05712E-10,001,48121E00,002,40603E-70,005,99452E-40,001,08823E-20,00
1.2 ByoDyn3,58862E-10,002,23196E10,001,75573E00,008,24131E-30,007,61977E-50,001,41581E-10,006,32221E-10,009,29985E-20,007,61329E20,003,05712E-10,001,48121E00,002,40603E-70,005,99452E-40,001,08823E-20,00
1.2 MathSBML3,58862E-10,00 - - - - 8,24131E-30,007,61978E-50,00 - - 6,32221E-10,00 - - - - - - - - 2,40603E-70,005,99454E-40,00 - -
1.2 Oscill8 Core0,00000E0100 - - - - 0,00000E01000,00000E0100 - - - - - - - - - - - - 0,00000E01001,00000E01,67E5 - -
1.2 SBToolbox23,58692E-10,002,23200E10,001,75570E00,008,24021E-30,007,61650E-50,001,41580E-10,006,32391E-10,009,29980E-20,007,61330E20,003,05710E-10,001,48120E00,002,40491E-70,005,99308E-40,001,08624E-20,18
1.2 SBWOdeSolver3,58863E-10,00 - - - - 8,24134E-30,007,61981E-50,00 - - 6,32219E-10,00 - - - - - - - - 2,40604E-70,005,99454E-40,00 - -
1.2 VCell3,58862E-10,00 - - - - 8,24131E-30,007,61977E-50,00 - - 6,32221E-10,00 - - - - - - - - 2,40603E-70,005,99452E-40,00 - -
1.2 copasi3,58862E-10,00 - - - - 8,24131E-30,007,61977E-50,00 - - 6,32221E-10,00 - - - - - - - - 2,40603E-70,005,99453E-40,00 - -
1.2 edu.kgi.roadRunner3,58862E-10,00 - - - - 8,24131E-30,007,61977E-50,00 - - 6,32221E-10,00 - - - - - - - - 2,40603E-70,005,99452E-40,00 - -
1.2 jsim3,58862E-10,002,23196E10,001,75573E00,008,24131E-30,007,61156E-50,001,41581E-10,006,32221E-10,009,29984E-20,007,61329E20,003,05712E-10,001,48121E00,002,40613E-70,005,99455E-40,001,08823E-20,00
1.4 BioUML3,44542E-10,002,23196E10,001,75573E00,006,99818E-30,007,20866E-50,001,41581E-10,006,47869E-10,009,29985E-20,007,61329E20,003,05712E-10,001,48121E00,002,26846E-70,005,19385E-40,009,24649E-30,00
1.4 ByoDyn3,44542E-10,002,23196E10,001,75573E00,006,99818E-30,007,20866E-50,001,41581E-10,006,47869E-10,009,29985E-20,007,61329E20,003,05712E-10,001,48121E00,002,26846E-70,005,19385E-40,009,24649E-30,00
1.4 MathSBML3,44542E-10,00 - - - - 6,99818E-30,007,20866E-50,00 - - 6,47869E-10,00 - - - - - - - - 2,26846E-70,005,19385E-40,00 - -
1.4 Oscill8 Core0,00000E0100 - - - - 0,00000E01000,00000E0100 - - - - - - - - - - - - 0,00000E01001,00000E01,92E5 - -
1.4 SBToolbox23,44346E-10,002,23200E10,001,75570E00,006,99624E-30,007,20467E-50,001,41580E-10,006,48075E-10,009,29980E-20,007,61330E20,003,05710E-10,001,48120E00,002,26708E-70,005,19202E-40,009,22512E-30,23
1.4 SBWOdeSolver3,44542E-10,00 - - - - 6,99821E-30,007,20868E-50,00 - - 6,47868E-10,00 - - - - - - - - 2,26846E-70,005,19387E-40,00 - -
1.4 VCell3,44542E-10,00 - - - - 6,99818E-30,007,20866E-50,00 - - 6,47869E-10,00 - - - - - - - - 2,26846E-70,005,19385E-40,00 - -
1.4 copasi3,44542E-10,00 - - - - 6,99818E-30,007,20866E-50,00 - - 6,47869E-10,00 - - - - - - - - 2,26846E-70,005,19385E-40,00 - -
1.4 edu.kgi.roadRunner3,44542E-10,00 - - - - 6,99818E-30,007,20866E-50,00 - - 6,47869E-10,00 - - - - - - - - 2,26846E-70,005,19385E-40,00 - -
1.4 jsim3,44542E-10,002,23196E10,001,75573E00,006,99818E-30,007,20048E-50,001,41581E-10,006,47869E-10,009,29984E-20,007,61329E20,003,05712E-10,001,48121E00,00