CompuCell3DAttachment 'Wambaugh_vLiver_PBPK_based_v4_APAPconj_Sul.xml'
Download 1 <?xml version="1.0" encoding="UTF-8"?>
2 <!-- Created by XMLPrettyPrinter on 10/4/2012 from -->
3 <sbml xmlns = "http://www.sbml.org/sbml/level2/version4" level = "2" version = "4">
4 <model id = "PBPK_model">
5 <listOfCompartments>
6 <compartment id = "compartment" size = "1"/>
7 </listOfCompartments>
8 <listOfSpecies>
9 <species id = "CArt" boundaryCondition = "false" initialConcentration = "0" compartment = "compartment"/>
10 <species id = "CGut" boundaryCondition = "false" initialConcentration = "0" compartment = "compartment"/>
11 <species id = "AGutlumen" boundaryCondition = "false" initialConcentration = "0" compartment = "compartment"/>
12 <species id = "CLung" boundaryCondition = "false" initialConcentration = "0" compartment = "compartment"/>
13 <species id = "CVen" boundaryCondition = "false" initialConcentration = "0" compartment = "compartment"/>
14 <species id = "CRest" boundaryCondition = "false" initialConcentration = "0" compartment = "compartment"/>
15 <species id = "CLiver" boundaryCondition = "false" initialConcentration = "1" compartment = "compartment"/>
16 <species id = "CMetabolized" boundaryCondition = "false" initialConcentration = "0" compartment = "compartment"/>
17 <species id = "CKidney" boundaryCondition = "false" initialConcentration = "0" compartment = "compartment"/>
18 <species id = "CTubules" boundaryCondition = "false" initialConcentration = "0" compartment = "compartment"/>
19 </listOfSpecies>
20 <listOfParameters>
21 <parameter id = "QGut" value = "69.0144"/>
22 <parameter id = "VArt" value = "1.49996"/>
23 <parameter id = "kGutabs" value = "1"/>
24 <parameter id = "QCardiac" value = "336"/>
25 <parameter id = "VLung" value = "0.5061"/>
26 <parameter id = "VVen" value = "3.409"/>
27 <parameter id = "QRest" value = "174.6192"/>
28 <parameter id = "Ratioblood2plasma" value = "1"/>
29 <parameter id = "KRest2plasma" value = "1"/>
30 <parameter id = "Fraction_unbound_plasma" value = "1"/>
31 <parameter id = "VRest" value = "33.47204"/>
32 <parameter id = "QLiver" value = "17.976"/>
33 <parameter id = "CLmetabolism" value = "0"/>
34 <parameter id = "Kliver2plasma" value = "1"/>
35 <parameter id = "VLiver" value = "1.7136"/>
36 <parameter id = "VGut" value = "1.106"/>
37 <parameter id = "QKidney" value = "74.3904"/>
38 <parameter id = "Qgfr" value = "126"/>
39 <parameter id = "Kkidney2plasma" value = "1"/>
40 <parameter id = "VKidney" value = "0.2933"/>
41 </listOfParameters>
42 <listOfReactions>
43 <reaction id = "J1" reversible = "false">
44 <listOfReactants>
45 <speciesReference species = "CArt" stoichiometry = "1"/>
46 </listOfReactants>
47 <listOfProducts>
48 <speciesReference species = "CGut" stoichiometry = "1"/>
49 </listOfProducts>
50 <kineticLaw>
51 <math xmlns = "http://www.w3.org/1998/Math/MathML">
52 <apply>
53 <divide/>
54 <apply>
55 <times/>
56 <ci>
57 QGut
58 </ci>
59 <ci>
60 CArt
61 </ci>
62 </apply>
63 <ci>
64 VArt
65 </ci>
66 </apply>
67 </math>
68 </kineticLaw>
69 </reaction>
70 <reaction id = "J2" reversible = "false">
71 <listOfReactants>
72 <speciesReference species = "AGutlumen" stoichiometry = "1"/>
73 </listOfReactants>
74 <listOfProducts>
75 <speciesReference species = "CGut" stoichiometry = "1"/>
76 </listOfProducts>
77 <kineticLaw>
78 <math xmlns = "http://www.w3.org/1998/Math/MathML">
79 <apply>
80 <times/>
81 <ci>
82 kGutabs
83 </ci>
84 <ci>
85 AGutlumen
86 </ci>
87 </apply>
88 </math>
89 </kineticLaw>
90 </reaction>
91 <reaction id = "J3" reversible = "false">
92 <listOfReactants>
93 <speciesReference species = "CLung" stoichiometry = "1"/>
94 </listOfReactants>
95 <listOfProducts>
96 <speciesReference species = "CArt" stoichiometry = "1"/>
97 </listOfProducts>
98 <kineticLaw>
99 <math xmlns = "http://www.w3.org/1998/Math/MathML">
100 <apply>
101 <divide/>
102 <apply>
103 <times/>
104 <ci>
105 QCardiac
106 </ci>
107 <ci>
108 CLung
109 </ci>
110 </apply>
111 <ci>
112 VLung
113 </ci>
114 </apply>
115 </math>
116 </kineticLaw>
117 </reaction>
118 <reaction id = "J4" reversible = "false">
119 <listOfReactants>
120 <speciesReference species = "CVen" stoichiometry = "1"/>
121 </listOfReactants>
122 <listOfProducts>
123 <speciesReference species = "CLung" stoichiometry = "1"/>
124 </listOfProducts>
125 <kineticLaw>
126 <math xmlns = "http://www.w3.org/1998/Math/MathML">
127 <apply>
128 <divide/>
129 <apply>
130 <times/>
131 <ci>
132 QCardiac
133 </ci>
134 <ci>
135 CVen
136 </ci>
137 </apply>
138 <ci>
139 VVen
140 </ci>
141 </apply>
142 </math>
143 </kineticLaw>
144 </reaction>
145 <reaction id = "J5" reversible = "false">
146 <listOfReactants>
147 <speciesReference species = "CArt" stoichiometry = "1"/>
148 </listOfReactants>
149 <listOfProducts>
150 <speciesReference species = "CRest" stoichiometry = "1"/>
151 </listOfProducts>
152 <kineticLaw>
153 <math xmlns = "http://www.w3.org/1998/Math/MathML">
154 <apply>
155 <divide/>
156 <apply>
157 <times/>
158 <ci>
159 QRest
160 </ci>
161 <ci>
162 CArt
163 </ci>
164 </apply>
165 <ci>
166 VArt
167 </ci>
168 </apply>
169 </math>
170 </kineticLaw>
171 </reaction>
172 <reaction id = "J6" reversible = "false">
173 <listOfReactants>
174 <speciesReference species = "CRest" stoichiometry = "1"/>
175 </listOfReactants>
176 <listOfProducts>
177 <speciesReference species = "CVen" stoichiometry = "1"/>
178 </listOfProducts>
179 <kineticLaw>
180 <math xmlns = "http://www.w3.org/1998/Math/MathML">
181 <apply>
182 <divide/>
183 <apply>
184 <divide/>
185 <apply>
186 <divide/>
187 <apply>
188 <times/>
189 <ci>
190 QRest
191 </ci>
192 <ci>
193 CRest
194 </ci>
195 <ci>
196 Ratioblood2plasma
197 </ci>
198 </apply>
199 <ci>
200 KRest2plasma
201 </ci>
202 </apply>
203 <ci>
204 Fraction_unbound_plasma
205 </ci>
206 </apply>
207 <ci>
208 VRest
209 </ci>
210 </apply>
211 </math>
212 </kineticLaw>
213 </reaction>
214 <reaction id = "J7" reversible = "false">
215 <listOfReactants>
216 <speciesReference species = "CArt" stoichiometry = "1"/>
217 </listOfReactants>
218 <listOfProducts>
219 <speciesReference species = "CLiver" stoichiometry = "1"/>
220 </listOfProducts>
221 <kineticLaw>
222 <math xmlns = "http://www.w3.org/1998/Math/MathML">
223 <apply>
224 <divide/>
225 <apply>
226 <times/>
227 <ci>
228 QLiver
229 </ci>
230 <ci>
231 CArt
232 </ci>
233 </apply>
234 <ci>
235 VArt
236 </ci>
237 </apply>
238 </math>
239 </kineticLaw>
240 </reaction>
241 <reaction id = "J8" reversible = "false">
242 <listOfReactants>
243 <speciesReference species = "CLiver" stoichiometry = "1"/>
244 </listOfReactants>
245 <listOfProducts>
246 <speciesReference species = "CMetabolized" stoichiometry = "1"/>
247 </listOfProducts>
248 <kineticLaw>
249 <math xmlns = "http://www.w3.org/1998/Math/MathML">
250 <apply>
251 <divide/>
252 <apply>
253 <divide/>
254 <apply>
255 <divide/>
256 <apply>
257 <times/>
258 <ci>
259 CLmetabolism
260 </ci>
261 <ci>
262 CLiver
263 </ci>
264 </apply>
265 <ci>
266 Kliver2plasma
267 </ci>
268 </apply>
269 <ci>
270 Fraction_unbound_plasma
271 </ci>
272 </apply>
273 <ci>
274 VLiver
275 </ci>
276 </apply>
277 </math>
278 </kineticLaw>
279 </reaction>
280 <reaction id = "J9" reversible = "false">
281 <listOfReactants>
282 <speciesReference species = "CGut" stoichiometry = "1"/>
283 </listOfReactants>
284 <listOfProducts>
285 <speciesReference species = "CLiver" stoichiometry = "1"/>
286 </listOfProducts>
287 <kineticLaw>
288 <math xmlns = "http://www.w3.org/1998/Math/MathML">
289 <apply>
290 <divide/>
291 <apply>
292 <times/>
293 <ci>
294 QGut
295 </ci>
296 <ci>
297 CGut
298 </ci>
299 </apply>
300 <ci>
301 VGut
302 </ci>
303 </apply>
304 </math>
305 </kineticLaw>
306 </reaction>
307 <reaction id = "J10" reversible = "false">
308 <listOfReactants>
309 <speciesReference species = "CLiver" stoichiometry = "1"/>
310 </listOfReactants>
311 <listOfProducts>
312 <speciesReference species = "CVen" stoichiometry = "1"/>
313 </listOfProducts>
314 <kineticLaw>
315 <math xmlns = "http://www.w3.org/1998/Math/MathML">
316 <apply>
317 <divide/>
318 <apply>
319 <divide/>
320 <apply>
321 <divide/>
322 <apply>
323 <times/>
324 <apply>
325 <plus/>
326 <ci>
327 QLiver
328 </ci>
329 <ci>
330 QGut
331 </ci>
332 </apply>
333 <ci>
334 CLiver
335 </ci>
336 <ci>
337 Ratioblood2plasma
338 </ci>
339 </apply>
340 <ci>
341 Kliver2plasma
342 </ci>
343 </apply>
344 <ci>
345 Fraction_unbound_plasma
346 </ci>
347 </apply>
348 <ci>
349 VLiver
350 </ci>
351 </apply>
352 </math>
353 </kineticLaw>
354 </reaction>
355 <reaction id = "J11" reversible = "false">
356 <listOfReactants>
357 <speciesReference species = "CArt" stoichiometry = "1"/>
358 </listOfReactants>
359 <listOfProducts>
360 <speciesReference species = "CKidney" stoichiometry = "1"/>
361 </listOfProducts>
362 <kineticLaw>
363 <math xmlns = "http://www.w3.org/1998/Math/MathML">
364 <apply>
365 <divide/>
366 <apply>
367 <times/>
368 <ci>
369 QKidney
370 </ci>
371 <ci>
372 CArt
373 </ci>
374 </apply>
375 <ci>
376 VArt
377 </ci>
378 </apply>
379 </math>
380 </kineticLaw>
381 </reaction>
382 <reaction id = "J12" reversible = "false">
383 <listOfReactants>
384 <speciesReference species = "CKidney" stoichiometry = "1"/>
385 </listOfReactants>
386 <listOfProducts>
387 <speciesReference species = "CTubules" stoichiometry = "1"/>
388 </listOfProducts>
389 <kineticLaw>
390 <math xmlns = "http://www.w3.org/1998/Math/MathML">
391 <apply>
392 <divide/>
393 <apply>
394 <divide/>
395 <apply>
396 <times/>
397 <ci>
398 Qgfr
399 </ci>
400 <ci>
401 CKidney
402 </ci>
403 </apply>
404 <ci>
405 Kkidney2plasma
406 </ci>
407 </apply>
408 <ci>
409 VKidney
410 </ci>
411 </apply>
412 </math>
413 </kineticLaw>
414 </reaction>
415 <reaction id = "J13" reversible = "false">
416 <listOfReactants>
417 <speciesReference species = "CKidney" stoichiometry = "1"/>
418 </listOfReactants>
419 <listOfProducts>
420 <speciesReference species = "CVen" stoichiometry = "1"/>
421 </listOfProducts>
422 <kineticLaw>
423 <math xmlns = "http://www.w3.org/1998/Math/MathML">
424 <apply>
425 <divide/>
426 <apply>
427 <divide/>
428 <apply>
429 <divide/>
430 <apply>
431 <times/>
432 <ci>
433 QKidney
434 </ci>
435 <ci>
436 CKidney
437 </ci>
438 <ci>
439 Ratioblood2plasma
440 </ci>
441 </apply>
442 <ci>
443 Kkidney2plasma
444 </ci>
445 </apply>
446 <ci>
447 Fraction_unbound_plasma
448 </ci>
449 </apply>
450 <ci>
451 VKidney
452 </ci>
453 </apply>
454 </math>
455 </kineticLaw>
456 </reaction>
457 </listOfReactions>
458 </model>
459 </sbml>
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