Skip to content

Commit 179d5db

Browse files
m-philippsm-philipps
committed
add Raia model that is compatible with version 1
1 parent 84828b0 commit 179d5db

9 files changed

Lines changed: 947 additions & 0 deletions

‎Benchmark-Models/Raia_CancerResearch2011/Raia_CancerResearch2011_v1/Raia_CancerResearch2011.yaml‎

Lines changed: 14 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,14 @@
1+
format_version: 1
2+
parameter_file: parameters_Raia_CancerResearch2011.tsv
3+
problems:
4+
- condition_files:
5+
- experimentalCondition_Raia_CancerResearch2011.tsv
6+
measurement_files:
7+
- measurementData_Raia_CancerResearch2011.tsv
8+
observable_files:
9+
- observables_Raia_CancerResearch2011.tsv
10+
sbml_files:
11+
- model_Raia_CancerResearch2011.xml
12+
visualization_files:
13+
- visualizationSpecification_Raia_CancerResearch2011.tsv
14+

‎Benchmark-Models/Raia_CancerResearch2011/Raia_CancerResearch2011_v1/experimentalCondition_Raia_CancerResearch2011.tsv‎

Lines changed: 5 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,5 @@
1+
conditionId conditionName il13_level
2+
model1_data1 Il13 level = 0 0
3+
model1_data2 il13 level = 20 20
4+
model1_data3 il13 level = 4 4
5+
model1_data4 il13 level = 80 80

‎Benchmark-Models/Raia_CancerResearch2011/Raia_CancerResearch2011_v1/measurementData_Raia_CancerResearch2011.tsv‎

Lines changed: 206 additions & 0 deletions
Large diffs are not rendered by default.

‎Benchmark-Models/Raia_CancerResearch2011/Raia_CancerResearch2011_v1/model_Raia_CancerResearch2011.xml‎

Lines changed: 441 additions & 0 deletions
Large diffs are not rendered by default.

‎Benchmark-Models/Raia_CancerResearch2011/Raia_CancerResearch2011_v1/observables_Raia_CancerResearch2011.tsv‎

Lines changed: 9 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,9 @@
1+
observableId observableName observableFormula noiseFormula observableTransformation noiseDistribution
2+
observable_CD274mRNA CD274mRNA * observableParameter1_observable_CD274mRNA noiseParameter1_observable_CD274mRNA + noiseParameter2_observable_CD274mRNA * (CD274mRNA * noiseParameter3_observable_CD274mRNA) lin normal
3+
observable_IL13_cell observableParameter1_observable_IL13_cell * (IL13_Rec + IL13_DecoyR + p_IL13_Rec + p_IL13_Rec_i) noiseParameter1_observable_IL13_cell + noiseParameter2_observable_IL13_cell * (noiseParameter3_observable_IL13_cell * (IL13_Rec + IL13_DecoyR + p_IL13_Rec + p_IL13_Rec_i)) lin normal
4+
observable_RecSurf IL13_Rec + Rec + p_IL13_Rec noiseParameter1_observable_RecSurf + noiseParameter2_observable_RecSurf * (IL13_Rec + Rec + p_IL13_Rec) lin normal
5+
observable_SOCS3 SOCS3 noiseParameter1_observable_SOCS3 + noiseParameter2_observable_SOCS3 * SOCS3 lin normal
6+
observable_SOCS3mRNA SOCS3mRNA * observableParameter1_observable_SOCS3mRNA noiseParameter1_observable_SOCS3mRNA + noiseParameter2_observable_SOCS3mRNA * (SOCS3mRNA * noiseParameter3_observable_SOCS3mRNA) lin normal
7+
observable_pIL4Ra observableParameter1_observable_pIL4Ra * (p_IL13_Rec + p_IL13_Rec_i) noiseParameter1_observable_pIL4Ra + noiseParameter2_observable_pIL4Ra * (noiseParameter3_observable_pIL4Ra * (p_IL13_Rec + p_IL13_Rec_i)) lin normal
8+
observable_pJAK2 pJAK2 * observableParameter1_observable_pJAK2 noiseParameter1_observable_pJAK2 + noiseParameter2_observable_pJAK2 * (pJAK2 * noiseParameter3_observable_pJAK2) lin normal
9+
observable_pSTAT5 pSTAT5 noiseParameter1_observable_pSTAT5 + noiseParameter2_observable_pSTAT5 * pSTAT5 lin normal

‎Benchmark-Models/Raia_CancerResearch2011/Raia_CancerResearch2011_v1/parameters_Raia_CancerResearch2011.tsv‎

Lines changed: 40 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,40 @@
1+
parameterId parameterName parameterScale lowerBound upperBound nominalValue estimate
2+
CD274mRNA_production CD274mRNA_{production} log10 1E-05 1000 0.021208853684209 1
3+
DecoyR_binding DecoyR_{binding} log10 1E-05 1000 0.003851039137402 1
4+
JAK2_p_inhibition JAK2_{p,inhibition} log10 1E-05 1000 0.078140000505809 1
5+
JAK2_phosphorylation JAK2_{phosphorylation} log10 1E-05 1000 1.01721171826747 1
6+
Kon_IL13Rec Kon_{IL13Rec} log10 1E-05 1000 0.002278141087201 1
7+
Rec_intern Rec_{intern} log10 1E-05 1000 0.344129281159739 1
8+
Rec_phosphorylation Rec_{phosphorylation} log10 1E-05 1000 999.999816483984 1
9+
Rec_recycle Rec_{recycle} log10 1E-05 1000 0.00209774906794 1
10+
SOCS3_accumulation SOCS3_{accumulation} log10 1E-05 1000 451.777901711184 1
11+
SOCS3_degradation SOCS3_{degradation} log10 1E-05 1000 0.043380223348167 1
12+
SOCS3_translation SOCS3_{translation} log10 1E-05 1000 15.7186888386006 1
13+
SOCS3mRNA_production SOCS3mRNA_{production} log10 1E-05 1000 0.14337151776186 1
14+
STAT5_phosphorylation STAT5_{phosphorylation} log10 1E-05 1000 0.01948207479306 1
15+
init_Rec_i init_{Rec,i} log10 1E-05 1000 235.058493601113 1
16+
pJAK2_dephosphorylation pJAK2_{dephosphorylation} log10 1E-05 1000 0.000175894009439 1
17+
pRec_degradation pRec_{degradation} log10 1E-05 1000 0.209573978543856 1
18+
pRec_intern pRec_{intern} log10 1E-05 1000 0.585271535297764 1
19+
pSTAT5_dephosphorylation pSTAT5_{dephosphorylation} log10 1E-05 1000 0.000274832319318 1
20+
scaling_CD274mRNA scaling_{CD274mRNA} log10 1E-05 1000 0.00815283660871 1
21+
scaling_IL13_cell scaling_{IL13,cell} log10 1E-05 1000 5.50098613841361 1
22+
scaling_SOCS3mRNA scaling_{SOCS3mRNA} log10 1E-05 1000 0.581287913862507 1
23+
scaling_pIL4Ra scaling_{pIL4Ra} log10 1E-05 1000 2.9757729322919 1
24+
scaling_pJAK2 scaling_{pJAK2} log10 1E-05 1000 0.857246885626022 1
25+
sd_SOCS3mRNA_abs sd_SOCS3mRNA_abs log10 1E-05 1000 9.2 1
26+
sd_RecSurf_abs sd_RecSurf_abs log10 1E-05 1000 1.00E-05 1
27+
sd_pSTAT5_rel sd_pSTAT5_rel log10 1E-05 1000 0.18 1
28+
sd_IL13_cell_rel sd_IL13_cell_rel log10 1E-05 1000 0.065 1
29+
sd_RecSurf_rel sd_RecSurf_rel log10 1E-05 1000 0.078 1
30+
sd_pJAK2_abs sd_pJAK2_abs log10 1E-05 1000 0.32 1
31+
sd_pIL4Ra_abs sd_pIL4Ra_abs log10 1E-05 1000 0.62 1
32+
sd_CD274mRNA_rel sd_CD274mRNA_rel log10 1E-05 1000 0.61 1
33+
sd_SOCS3mRNA_rel sd_SOCS3mRNA_rel log10 1E-05 1000 0.52 1
34+
sd_pIL4Ra_rel sd_pIL4Ra_rel log10 1E-05 1000 1.10E-05 1
35+
sd_IL13_cell_abs sd_IL13_cell_abs log10 1E-05 1000 0.28 1
36+
sd_SOCS3_rel sd_SOCS3_rel log10 1E-05 1000 0.18 1
37+
sd_CD274mRNA_abs sd_CD274mRNA_abs log10 1E-05 1000 0.024 1
38+
sd_pSTAT5_abs sd_pSTAT5_abs log10 1E-05 1000 1.4 1
39+
sd_SOCS3_abs sd_SOCS3_abs log10 1E-05 1000 15 1
40+
sd_pJAK2_rel sd_pJAK2_rel log10 1E-05 1000 1.00E-05 1

‎Benchmark-Models/Raia_CancerResearch2011/Raia_CancerResearch2011_v1/simulatedData_Raia_CancerResearch2011.tsv‎

Lines changed: 206 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,206 @@
1+
observableId preequilibrationCondition simulationCondition simulation time observableParameters noiseParameters
2+
RecSurf model1_data1 1.3 0
3+
RecSurf model1_data1 1.427926242 10
4+
RecSurf model1_data1 1.4319383562 20
5+
RecSurf model1_data1 1.432064218 30
6+
RecSurf model1_data1 1.4320683867 60
7+
RecSurf model1_data1 1.4320684562 90
8+
RecSurf model1_data1 1.4320684584 120
9+
IL13_cell model1_data1 0 0
10+
IL13_cell model1_data1 0 15
11+
IL13_cell model1_data1 0 30
12+
IL13_cell model1_data1 0 60
13+
IL13_cell model1_data1 0 90
14+
IL13_cell model1_data1 0 120
15+
SOCS3mRNA model1_data1 0 0
16+
SOCS3mRNA model1_data1 0 20
17+
SOCS3mRNA model1_data1 0 30
18+
SOCS3mRNA model1_data1 0 40
19+
SOCS3mRNA model1_data1 0 60
20+
SOCS3mRNA model1_data1 0 80
21+
SOCS3mRNA model1_data1 0 90
22+
SOCS3mRNA model1_data1 0 100
23+
SOCS3mRNA model1_data1 0 120
24+
CD274mRNA model1_data1 0 30
25+
CD274mRNA model1_data1 0 60
26+
CD274mRNA model1_data1 0 90
27+
CD274mRNA model1_data1 0 120
28+
SOCS3 model1_data1 0 0
29+
SOCS3 model1_data1 0 20
30+
SOCS3 model1_data1 0 40
31+
SOCS3 model1_data1 0 60
32+
SOCS3 model1_data1 0 90
33+
SOCS3 model1_data1 0 120
34+
IL13_cell model1_data2 3.7024348123 5
35+
IL13_cell model1_data2 5.1026012059 10
36+
IL13_cell model1_data2 5.6061765227 15
37+
IL13_cell model1_data2 5.7871881096 20
38+
IL13_cell model1_data2 5.8672215586 30
39+
IL13_cell model1_data2 5.8625775062 40
40+
IL13_cell model1_data2 5.8456085207 50
41+
IL13_cell model1_data2 5.8268553725 60
42+
IL13_cell model1_data2 5.788996529 80
43+
IL13_cell model1_data2 5.7514395189 100
44+
IL13_cell model1_data2 5.7142386514 120
45+
pIL4Ra model1_data2 0 0
46+
pIL4Ra model1_data2 1.226370545 4
47+
pIL4Ra model1_data2 1.4137574553 5
48+
pIL4Ra model1_data2 1.6865488089 7
49+
pIL4Ra model1_data2 1.9251305934 10
50+
pIL4Ra model1_data2 2.0946684877 15
51+
pIL4Ra model1_data2 2.1495822965 20
52+
pIL4Ra model1_data2 2.1673789234 30
53+
pIL4Ra model1_data2 2.160402643 40
54+
pIL4Ra model1_data2 2.1555141743 45
55+
pIL4Ra model1_data2 2.140140007 60
56+
pJAK2 model1_data2 0 0
57+
pJAK2 model1_data2 0.9775092322 4
58+
pJAK2 model1_data2 1.2102338931 5
59+
pJAK2 model1_data2 1.5564372517 7
60+
pJAK2 model1_data2 1.8547029057 10
61+
pJAK2 model1_data2 2.0411811523 15
62+
pJAK2 model1_data2 2.0678225772 20
63+
pJAK2 model1_data2 2.036161077 25
64+
pJAK2 model1_data2 1.9807970906 30
65+
pJAK2 model1_data2 1.8462457668 40
66+
pJAK2 model1_data2 1.7766686151 45
67+
pJAK2 model1_data2 1.7084751945 50
68+
pJAK2 model1_data2 1.57993676 60
69+
pJAK2 model1_data2 1.3627465451 80
70+
pJAK2 model1_data2 1.1975863655 100
71+
pJAK2 model1_data2 1.0750810942 120
72+
SOCS3mRNA model1_data2 0 0
73+
SOCS3mRNA model1_data2 54.7642430565 20
74+
SOCS3mRNA model1_data2 122.3095653067 30
75+
SOCS3mRNA model1_data2 200.2799185297 40
76+
SOCS3mRNA model1_data2 364.8542894841 60
77+
SOCS3mRNA model1_data2 527.0847080334 80
78+
SOCS3mRNA model1_data2 605.5634673119 90
79+
SOCS3mRNA model1_data2 682.051466418 100
80+
SOCS3mRNA model1_data2 829.1181009635 120
81+
CD274mRNA model1_data2 0.253765268 30
82+
CD274mRNA model1_data2 0.75699187 60
83+
CD274mRNA model1_data2 1.2564101197 90
84+
CD274mRNA model1_data2 1.7202364883 120
85+
SOCS3 model1_data2 0 0
86+
SOCS3 model1_data2 14.3117853821 20
87+
SOCS3 model1_data2 75.5899554372 40
88+
SOCS3 model1_data2 142.0469159486 60
89+
SOCS3 model1_data2 192.9222195204 80
90+
SOCS3 model1_data2 212.2654948088 90
91+
SOCS3 model1_data2 228.2361275238 100
92+
SOCS3 model1_data2 252.3148540949 120
93+
pSTAT5 model1_data2 0 0
94+
pSTAT5 model1_data2 9.8369693678 5
95+
pSTAT5 model1_data2 33.0656452021 10
96+
pSTAT5 model1_data2 54.527209543 15
97+
pSTAT5 model1_data2 70.5470742104 20
98+
pSTAT5 model1_data2 81.6623451946 25
99+
pSTAT5 model1_data2 89.0829820535 30
100+
pSTAT5 model1_data2 93.8642092334 35
101+
pSTAT5 model1_data2 96.7932901915 40
102+
pSTAT5 model1_data2 98.4294175031 45
103+
pSTAT5 model1_data2 99.1632089984 50
104+
pSTAT5 model1_data2 98.9293869832 60
105+
pSTAT5 model1_data2 97.4282678713 70
106+
pSTAT5 model1_data2 95.3294708838 80
107+
pSTAT5 model1_data2 92.9819600134 90
108+
pSTAT5 model1_data2 90.5750752559 100
109+
pSTAT5 model1_data2 85.9613665968 120
110+
RecSurf model1_data3 1.3 0
111+
RecSurf model1_data3 1.3964620975 10
112+
RecSurf model1_data3 1.3963221638 20
113+
RecSurf model1_data3 1.3947086697 30
114+
RecSurf model1_data3 1.3897823176 60
115+
RecSurf model1_data3 1.3848761993 90
116+
RecSurf model1_data3 1.3799892107 120
117+
IL13_cell model1_data3 0.8943932753 5
118+
IL13_cell model1_data3 1.4008696495 10
119+
IL13_cell model1_data3 1.7047650106 15
120+
IL13_cell model1_data3 1.9146632507 20
121+
IL13_cell model1_data3 2.2033843979 30
122+
IL13_cell model1_data3 2.397562842 40
123+
IL13_cell model1_data3 2.5330812121 50
124+
IL13_cell model1_data3 2.6282078445 60
125+
IL13_cell model1_data3 2.7417122581 80
126+
IL13_cell model1_data3 2.7970503617 100
127+
IL13_cell model1_data3 2.8234478969 120
128+
pIL4Ra model1_data3 0 0
129+
pIL4Ra model1_data3 0.2744955332 4
130+
pIL4Ra model1_data3 0.3216578772 5
131+
pIL4Ra model1_data3 0.3933567687 7
132+
pIL4Ra model1_data3 0.4597043427 10
133+
pIL4Ra model1_data3 0.5098622422 15
134+
pIL4Ra model1_data3 0.5209355598 17.5
135+
pIL4Ra model1_data3 0.5274474002 20
136+
pIL4Ra model1_data3 0.5312455475 22.5
137+
pIL4Ra model1_data3 0.5334322396 25
138+
pIL4Ra model1_data3 0.5353274577 30
139+
pIL4Ra model1_data3 0.5357859807 35
140+
pIL4Ra model1_data3 0.5357406973 40
141+
pIL4Ra model1_data3 0.5355190019 45
142+
pIL4Ra model1_data3 0.5352357244 50
143+
pIL4Ra model1_data3 0.5346192231 60
144+
pJAK2 model1_data3 0 0
145+
pJAK2 model1_data3 0.1344067902 2.5
146+
pJAK2 model1_data3 0.2642849089 4
147+
pJAK2 model1_data3 0.3526639874 5
148+
pJAK2 model1_data3 0.521188721 7
149+
pJAK2 model1_data3 0.5607467453 7.5
150+
pJAK2 model1_data3 0.7405410267 10
151+
pJAK2 model1_data3 0.8896091434 12.5
152+
pJAK2 model1_data3 1.0088202039 15
153+
pJAK2 model1_data3 1.1002654097 17.5
154+
pJAK2 model1_data3 1.1670068 20
155+
pJAK2 model1_data3 1.241456966 25
156+
pJAK2 model1_data3 1.2614818608 30
157+
pJAK2 model1_data3 1.2493256128 35
158+
pJAK2 model1_data3 1.2189568692 40
159+
pJAK2 model1_data3 1.1786213845 45
160+
pJAK2 model1_data3 1.1331778076 50
161+
pJAK2 model1_data3 1.0374903391 60
162+
pJAK2 model1_data3 0.8999485342 75
163+
pJAK2 model1_data3 0.7799605406 90
164+
pJAK2 model1_data3 0.6795218428 105
165+
pJAK2 model1_data3 0.5971065427 120
166+
pSTAT5 model1_data3 0 0
167+
pSTAT5 model1_data3 2.634483631 5
168+
pSTAT5 model1_data3 11.7531433701 10
169+
pSTAT5 model1_data3 24.2748997534 15
170+
pSTAT5 model1_data3 37.1275881585 20
171+
pSTAT5 model1_data3 48.5191839147 25
172+
pSTAT5 model1_data3 57.7724617566 30
173+
pSTAT5 model1_data3 64.8726802287 35
174+
pSTAT5 model1_data3 70.0862329678 40
175+
pSTAT5 model1_data3 73.7501381984 45
176+
pSTAT5 model1_data3 76.1821120513 50
177+
pSTAT5 model1_data3 78.3751652344 60
178+
pSTAT5 model1_data3 78.2340324455 70
179+
pSTAT5 model1_data3 76.7224653597 80
180+
pSTAT5 model1_data3 71.6980840069 100
181+
pSTAT5 model1_data3 65.7771184221 120
182+
RecSurf model1_data4 1.3 0
183+
RecSurf model1_data4 1.1049968747 10
184+
RecSurf model1_data4 1.0898045247 20
185+
RecSurf model1_data4 1.0774192011 30
186+
RecSurf model1_data4 1.041131316 60
187+
RecSurf model1_data4 1.0060657941 90
188+
RecSurf model1_data4 0.9721785729 120
189+
IL13_cell model1_data4 8.8441547846 5
190+
IL13_cell model1_data4 10.572248259 10
191+
IL13_cell model1_data4 11.0789193277 15
192+
IL13_cell model1_data4 11.218392462 20
193+
IL13_cell model1_data4 11.2025120759 30
194+
IL13_cell model1_data4 11.1076204284 40
195+
IL13_cell model1_data4 11.0040750003 50
196+
IL13_cell model1_data4 10.9005095881 60
197+
IL13_cell model1_data4 10.6965838267 80
198+
IL13_cell model1_data4 10.497236095 100
199+
IL13_cell model1_data4 10.3023831625 120
200+
SOCS3 model1_data4 0 0
201+
SOCS3 model1_data4 20.248449512 20
202+
SOCS3 model1_data4 87.1663276835 40
203+
SOCS3 model1_data4 153.238083014 60
204+
SOCS3 model1_data4 202.2629088523 80
205+
SOCS3 model1_data4 235.9720185864 100
206+
SOCS3 model1_data4 258.9746918774 120

‎Benchmark-Models/Raia_CancerResearch2011/Raia_CancerResearch2011_v1/visualizationSpecification_Raia_CancerResearch2011.tsv‎

Lines changed: 24 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,24 @@
1+
plotId plotName plotTypeSimulation plotTypeData datasetId xValues xLabel yValues yLabel legendEntry
2+
plot1 RecSurf LinePlot MeanAndSD model1_data1_RecSurf time Time [s] observable_RecSurf Phosphorylation (AU) IL13 = 0
3+
plot1 RecSurf LinePlot MeanAndSD model1_data3_RecSurf time Time [s] observable_RecSurf Phosphorylation (AU) IL13 = 4
4+
plot1 RecSurf LinePlot MeanAndSD model1_data4_RecSurf time Time [s] observable_RecSurf Phosphorylation (AU) IL13 = 80
5+
plot2 IL13_cell LinePlot MeanAndSD model1_data1_IL13_cell time Time [s] observable_IL13_cell Phosphorylation (AU) IL13 = 0
6+
plot2 IL13_cell LinePlot MeanAndSD model1_data2_IL13_cell time Time [s] observable_IL13_cell Phosphorylation (AU) IL13 = 20
7+
plot2 IL13_cell LinePlot MeanAndSD model1_data3_IL13_cell time Time [s] observable_IL13_cell Phosphorylation (AU) IL13 = 4
8+
plot2 IL13_cell LinePlot MeanAndSD model1_data4_IL13_cell time Time [s] observable_IL13_cell Phosphorylation (AU) IL13 = 80
9+
plot3 SOCS3mRNA LinePlot MeanAndSD model1_data1_SOCS3mRNA time Time [s] observable_SOCS3mRNA Phosphorylation (AU) IL13 = 0
10+
plot3 SOCS3mRNA LinePlot MeanAndSD model1_data2_SOCS3mRNA time Time [s] observable_SOCS3mRNA Phosphorylation (AU) IL13 = 20
11+
plot4 CD274mRNA LinePlot MeanAndSD model1_data1_CD274mRNA time Time [s] observable_CD274mRNA Phosphorylation (AU) IL13 = 0
12+
plot4 CD274mRNA LinePlot MeanAndSD model1_data2_CD274mRNA time Time [s] observable_CD274mRNA Phosphorylation (AU) IL13 = 20
13+
plot5 SOCS3 LinePlot MeanAndSD model1_data1_SOCS3 time Time [s] observable_SOCS3 Phosphorylation (AU) IL13 = 0
14+
plot5 SOCS3 LinePlot MeanAndSD model1_data2_SOCS3 time Time [s] observable_SOCS3 Phosphorylation (AU) IL13 = 20
15+
plot5 SOCS3 LinePlot MeanAndSD model1_data4_SOCS3 time Time [s] observable_SOCS3 Phosphorylation (AU) IL13 = 80
16+
plot6 IL13_cell LinePlot MeanAndSD model1_data2_IL13_cell time Time [s] observable_IL13_cell Phosphorylation (AU) IL13 = 20
17+
plot6 IL13_cell LinePlot MeanAndSD model1_data3_IL13_cell time Time [s] observable_IL13_cell Phosphorylation (AU) IL13 = 4
18+
plot6 IL13_cell LinePlot MeanAndSD model1_data4_IL13_cell time Time [s] observable_IL13_cell Phosphorylation (AU) IL13 = 80
19+
plot7 pIL4Ra LinePlot MeanAndSD model1_data2_pIL4Ra time Time [s] observable_pIL4Ra Phosphorylation (AU) IL13 = 20
20+
plot7 pIL4Ra LinePlot MeanAndSD model1_data3_pIL4Ra time Time [s] observable_pIL4Ra Phosphorylation (AU) IL13 = 4
21+
plot8 pJAK2 LinePlot MeanAndSD model1_data2_pJAK2 time Time [s] observable_pJAK2 Phosphorylation (AU) IL13 = 20
22+
plot8 pJAK2 LinePlot MeanAndSD model1_data3_pJAK2 time Time [s] observable_pJAK2 Phosphorylation (AU) IL13 = 4
23+
plot9 pSTAT5 LinePlot MeanAndSD model1_data2_pSTAT5 time Time [s] observable_pSTAT5 Phosphorylation (AU) IL13 = 20
24+
plot9 pSTAT5 LinePlot MeanAndSD model1_data3_pSTAT5 time Time [s] observable_pSTAT5 Phosphorylation (AU) IL13 = 4

‎Benchmark-Models/Raia_CancerResearch2011/readme.md‎

Lines changed: 2 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,2 @@
1+
This problem has observable-dependent noise which is not supported in PEtab version 1.
2+
The folder Raia_CancerResearch2011_v1 contains all files for a petab problem that is compatible with version 1. Note that this uses state-dependent noise, which is not compatible with some tools, like amici.

0 commit comments

Comments
 (0)