Team:Groningen/Graphs/GlpFTransport

From 2009.igem.org

(Difference between revisions)
(Updated differential equations.)
(Making use of the new modelling code.)
Line 1: Line 1:
{
{
-
script: "var data=[Number(document.getElementById('As3exInitial').value)*1e-6,0],\
+
script: "var Vcells=getInput('Vcells'),\
-
             Vcells=Number(document.getElementById('Vcells').value),\
+
             Vtotal=getInput('Vtotal');\
-
            Vtotal=Number(document.getElementById('Vtotal').value),\
+
        var Vsolution = Vtotal - Vcells;\
-
            v5=Number(document.getElementById('v5').value)*1e-6,\
+
        var c = arsenicModelConstants();\
-
            K5=Number(document.getElementById('K5').value)*1e-6;\
+
        c.AsT = Vsolution*getInput('As3exInitial')*1e-6;\
-
         var Vcellsdivmedium = Vcells/(Vtotal - Vcells);\
+
        c.v5 = getInput('v5')*1e-6;\
-
         var ddata=new Array(data.length);\
+
        c.K5 = getInput('K5')*1e-6;\
-
         var n=data.length, j;\
+
         c.Vc = Vcells*1e-3;\
 +
         c.Vs = Vsolution*1e-3;\
 +
         var data = simulate(arsenicModelInitialization(c),3600,function(x){return arsenicModelGradient(c,x);});\
         var d=[{title:'As(III)<sub>ex</sub>',data:[],args:{plot:'outer',{{:Team:Groningen/Styles/As(III)ex}}}},\
         var d=[{title:'As(III)<sub>ex</sub>',data:[],args:{plot:'outer',{{:Team:Groningen/Styles/As(III)ex}}}},\
                 {title:'As(III)',data:[],args:{plot:'inner',{{:Team:Groningen/Styles/As(III)}}}}];\
                 {title:'As(III)',data:[],args:{plot:'inner',{{:Team:Groningen/Styles/As(III)}}}}];\
-
         j=n; while(j-->0) d[j].data.push({x:0,y:data[j]*1e6});\
+
         var t = Number.NEGATIVE_INFINITY;\
-
         for(var i=1; i<=3600; i++) {\
+
         for(var i=0; i<data.time.length; i++) {\
-
           var f=i/60;\
+
           var f=data.time[i]/60;\
-
           ddata[1] = v5*data[0]/(K5+data[0]);\
+
           if (f>=t+0.1) {\
-
          ddata[0] = -ddata[1]*Vcellsdivmedium ;\
+
            t = t+0.1;
-
          j=n; while(j-->0) data[j] += ddata[j];\
+
            d[0].data.push({x:f,y:data.AsexT[i]*1e6});\
-
          if (i%10==0) j=n; while(j-->0) d[j].data.push({x:f,y:data[j]*1e6});\
+
            d[1].data.push({x:f,y:data.AsinT[i]*1e6});\
 +
          }\
         }\
         }\
         d.push({title:'As(III)<sub>ex</sub> Meng2004',\
         d.push({title:'As(III)<sub>ex</sub> Meng2004',\

Revision as of 11:36, 20 September 2009

{ script: "var Vcells=getInput('Vcells'),\ 

            Vtotal=getInput('Vtotal');\
        var Vsolution = Vtotal - Vcells;\
        var c = arsenicModelConstants();\
        c.AsT = Vsolution*getInput('As3exInitial')*1e-6;\
        c.v5 = getInput('v5')*1e-6;\
        c.K5 = getInput('K5')*1e-6;\
        c.Vc = Vcells*1e-3;\
        c.Vs = Vsolution*1e-3;\
        var data = simulate(arsenicModelInitialization(c),3600,function(x){return arsenicModelGradient(c,x);});\
        var d=[{title:'As(III)ex',data:[],args:{plot:'outer',stroke: { color: '#8B2500' }}},\
               {title:'As(III)',data:[],args:{plot:'inner',stroke: { color: '#FF4500' }}}];\
        var t = Number.NEGATIVE_INFINITY;\
        for(var i=0; i<data.time.length; i++) {\
          var f=data.time[i]/60;\
          if (f>=t+0.1) {\
            t = t+0.1;
            d[0].data.push({x:f,y:data.AsexT[i]*1e6});\
            d[1].data.push({x:f,y:data.AsinT[i]*1e6});\
          }\
        }\
        d.push({title:'As(III)ex Meng2004',\
                data:[{x:1,y:8.47076050151002}, {x:10,y:6.51596961654617}, {x:20,y:4.3195753637778},\
                      {x:40,y:1.72783014551112}, {x:60,y:0.9371282145145}],\
                args:{plot: 'outer', stroke: { color: '#8B2500' }}});\
        d.push({title:'As(III) Meng2004',\
                data:[{x:1,y:101.917808219178}, {x:10,y:394.520547945205}, {x:20,y:723.287671232877},\
                      {x:40,y:1111.23287671233}, {x:60,y:1229.58904109589}],\
                args:{plot: 'inner', stroke: { color: '#FF4500' }}});\
        for(j=n; j<d.length; j++) d[j].args.stroke.style = 'Dash';\
        d;",

width: '10cm', height: '8cm', axes: {x: {title: "time (min)", minorLabels: false}, innery: {title: "concentration in cell (µM)", vertical: true, min: 0}, outery: {title: "concentration in solution (µM)", vertical: true, leftBottom: false, min: 0} }, plots: { 'inner': {type: 'Lines', vAxis: 'innery'}, 'outer': {type: 'Lines', vAxis: 'outery'} } }

Retrieved from "http://2009.igem.org/Team:Groningen/Graphs/GlpFTransport"