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add the reformulated version of Fiedler_BMCSystBiol2016 (#258)
* fix Fiedler_BMCSystBiol2016 ID * remove preequilibrationConditionId column from measurement table * add DatasetId column to measurement table * add reformulated model Fiedler_BMCSystBiol2016_rel
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‎Benchmark-Models/Fiedler_BMCSystBiol2016/measurementData_Fiedler_BMCSystBiol2016.tsv‎

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observableId preequilibrationConditionId simulationConditionId measurement time observableParameters noiseParameters
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pErk model1_data1 0.037959 0 s_pErk_20140430_gel1 s_pErk_20140430_gel1;sigma_pErk
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pErk model1_data1 0.042262 0.25 s_pErk_20140430_gel1 s_pErk_20140430_gel1;sigma_pErk
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pErk model1_data1 0.162628 1 s_pErk_20140430_gel1 s_pErk_20140430_gel1;sigma_pErk
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pErk model1_data1 0.052124 5.5 s_pErk_20140430_gel1 s_pErk_20140430_gel1;sigma_pErk
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pErk model1_data1 0.023196 7 s_pErk_20140430_gel1 s_pErk_20140430_gel1;sigma_pErk
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pErk model1_data1 0.037687 8.5 s_pErk_20140430_gel1 s_pErk_20140430_gel1;sigma_pErk
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pErk model1_data1 0.028724 10 s_pErk_20140430_gel1 s_pErk_20140430_gel1;sigma_pErk
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pErk model1_data1 0.297881 0 s_pErk_20140505_gel1 s_pErk_20140505_gel1;sigma_pErk
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pErk model1_data1 3.043549 0.25 s_pErk_20140505_gel1 s_pErk_20140505_gel1;sigma_pErk
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pErk model1_data1 3.098459 1 s_pErk_20140505_gel1 s_pErk_20140505_gel1;sigma_pErk
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pErk model1_data1 0.224662 5.5 s_pErk_20140505_gel1 s_pErk_20140505_gel1;sigma_pErk
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pErk model1_data1 0.38254 7 s_pErk_20140505_gel1 s_pErk_20140505_gel1;sigma_pErk
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pErk model1_data1 0.123338 8.5 s_pErk_20140505_gel1 s_pErk_20140505_gel1;sigma_pErk
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pErk model1_data1 0.229486 10 s_pErk_20140505_gel1 s_pErk_20140505_gel1;sigma_pErk
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pErk model1_data2 0.039731 0 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk
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pErk model1_data2 0.03303482 1 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk
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pErk model1_data2 0.019296634 5.5 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk
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pErk model1_data2 0.017683446 7 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk
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pErk model1_data2 0.020209467 8.5 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk
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pErk model1_data2 0.02141076 10 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk
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pErk model1_data2 0.301624 0 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk
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pErk model1_data2 0.54 1 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk
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pErk model1_data2 0.27 5.5 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk
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pErk model1_data2 0.25 7 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk
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pErk model1_data2 0.18 8.5 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk
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pErk model1_data2 0.15 10 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk
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pErk model1_data3 0.004107653 1 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk
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pErk model1_data3 0.011631788 5.5 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk
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pErk model1_data3 0.012694322 7 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk
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pErk model1_data3 0.003687738 8.5 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk
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pErk model1_data3 0.002426131 10 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk
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pErk model1_data3 0.176167582 1 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk
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pErk model1_data3 0.069008927 5.5 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk
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pErk model1_data3 0.074311261 7 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk
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pErk model1_data3 0.073151837 8.5 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk
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pErk model1_data3 0.048102336 10 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk
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pMek model1_data1 0.116721 0 s_pMek_20140430_gel1 s_pMek_20140430_gel1;sigma_pMek
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pMek model1_data1 0.232984 0.25 s_pMek_20140430_gel1 s_pMek_20140430_gel1;sigma_pMek
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pMek model1_data1 0.305171 1 s_pMek_20140430_gel1 s_pMek_20140430_gel1;sigma_pMek
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pMek model1_data1 0.125647 5.5 s_pMek_20140430_gel1 s_pMek_20140430_gel1;sigma_pMek
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pMek model1_data1 0.073706 7 s_pMek_20140430_gel1 s_pMek_20140430_gel1;sigma_pMek
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pMek model1_data1 0.058253 8.5 s_pMek_20140430_gel1 s_pMek_20140430_gel1;sigma_pMek
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pMek model1_data1 0.066667 10 s_pMek_20140430_gel1 s_pMek_20140430_gel1;sigma_pMek
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pMek model1_data1 0.22033 0 s_pMek_20140505_gel1 s_pMek_20140505_gel1;sigma_pMek
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pMek model1_data1 1.683107 0.25 s_pMek_20140505_gel1 s_pMek_20140505_gel1;sigma_pMek
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pMek model1_data1 1.441176 1 s_pMek_20140505_gel1 s_pMek_20140505_gel1;sigma_pMek
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pMek model1_data1 0.225572 5.5 s_pMek_20140505_gel1 s_pMek_20140505_gel1;sigma_pMek
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pMek model1_data1 0.278346 7 s_pMek_20140505_gel1 s_pMek_20140505_gel1;sigma_pMek
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pMek model1_data1 0.137178 8.5 s_pMek_20140505_gel1 s_pMek_20140505_gel1;sigma_pMek
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pMek model1_data1 0.196426 10 s_pMek_20140505_gel1 s_pMek_20140505_gel1;sigma_pMek
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pMek model1_data2 0.121231 0 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek
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pMek model1_data2 0.086929466 1 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek
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pMek model1_data2 0.054910478 5.5 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek
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pMek model1_data2 0.048881617 7 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek
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pMek model1_data2 0.052341248 8.5 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek
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pMek model1_data2 0.052595374 10 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek
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pMek model1_data2 0.155276 0 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek
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pMek model1_data2 0.24 1 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek
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pMek model1_data2 0.12 5.5 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek
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pMek model1_data2 0.12 7 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek
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pMek model1_data2 0.07 8.5 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek
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pMek model1_data2 0.07 10 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek
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pMek model1_data3 1.724493879 1 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek
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pMek model1_data3 1.683168571 5.5 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek
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pMek model1_data3 1.470175735 7 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek
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pMek model1_data3 1.557371739 8.5 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek
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pMek model1_data3 1.559108205 10 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek
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pMek model1_data3 5.857600733 1 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek
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pMek model1_data3 2.857976654 5.5 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek
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pMek model1_data3 4.607660706 7 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek
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pMek model1_data3 2.789397964 8.5 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek
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pMek model1_data3 1.623004546 10 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek
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observableId simulationConditionId measurement time observableParameters noiseParameters datasetId
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pErk model1_data1 0.037959 0 s_pErk_20140430_gel1 s_pErk_20140430_gel1;sigma_pErk control
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pErk model1_data1 0.042262 0.25 s_pErk_20140430_gel1 s_pErk_20140430_gel1;sigma_pErk control
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pErk model1_data1 0.162628 1 s_pErk_20140430_gel1 s_pErk_20140430_gel1;sigma_pErk control
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pErk model1_data1 0.052124 5.5 s_pErk_20140430_gel1 s_pErk_20140430_gel1;sigma_pErk control
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pErk model1_data1 0.023196 7 s_pErk_20140430_gel1 s_pErk_20140430_gel1;sigma_pErk control
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pErk model1_data1 0.037687 8.5 s_pErk_20140430_gel1 s_pErk_20140430_gel1;sigma_pErk control
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pErk model1_data1 0.028724 10 s_pErk_20140430_gel1 s_pErk_20140430_gel1;sigma_pErk control
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pErk model1_data1 0.297881 0 s_pErk_20140505_gel1 s_pErk_20140505_gel1;sigma_pErk control
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pErk model1_data1 3.043549 0.25 s_pErk_20140505_gel1 s_pErk_20140505_gel1;sigma_pErk control
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pErk model1_data1 3.098459 1 s_pErk_20140505_gel1 s_pErk_20140505_gel1;sigma_pErk control
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pErk model1_data1 0.224662 5.5 s_pErk_20140505_gel1 s_pErk_20140505_gel1;sigma_pErk control
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pErk model1_data1 0.38254 7 s_pErk_20140505_gel1 s_pErk_20140505_gel1;sigma_pErk control
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pErk model1_data1 0.123338 8.5 s_pErk_20140505_gel1 s_pErk_20140505_gel1;sigma_pErk control
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pErk model1_data1 0.229486 10 s_pErk_20140505_gel1 s_pErk_20140505_gel1;sigma_pErk control
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pErk model1_data2 0.039731 0 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk Sorafenib
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pErk model1_data2 0.03303482 1 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk Sorafenib
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pErk model1_data2 0.019296634 5.5 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk Sorafenib
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pErk model1_data2 0.017683446 7 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk Sorafenib
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pErk model1_data2 0.020209467 8.5 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk Sorafenib
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pErk model1_data2 0.02141076 10 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk Sorafenib
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pErk model1_data2 0.301624 0 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk Sorafenib
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pErk model1_data2 0.54 1 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk Sorafenib
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pErk model1_data2 0.27 5.5 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk Sorafenib
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pErk model1_data2 0.25 7 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk Sorafenib
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pErk model1_data2 0.18 8.5 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk Sorafenib
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pErk model1_data2 0.15 10 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk Sorafenib
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pErk model1_data3 0.004107653 1 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk UO126
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pErk model1_data3 0.011631788 5.5 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk UO126
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pErk model1_data3 0.012694322 7 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk UO126
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pErk model1_data3 0.003687738 8.5 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk UO126
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pErk model1_data3 0.002426131 10 s_pErk_20140430_gel2 s_pErk_20140430_gel2;sigma_pErk UO126
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pErk model1_data3 0.176167582 1 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk UO126
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pErk model1_data3 0.069008927 5.5 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk UO126
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pErk model1_data3 0.074311261 7 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk UO126
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pErk model1_data3 0.073151837 8.5 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk UO126
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pErk model1_data3 0.048102336 10 s_pErk_20140505_gel2 s_pErk_20140505_gel2;sigma_pErk UO126
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pMek model1_data1 0.116721 0 s_pMek_20140430_gel1 s_pMek_20140430_gel1;sigma_pMek control
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pMek model1_data1 0.232984 0.25 s_pMek_20140430_gel1 s_pMek_20140430_gel1;sigma_pMek control
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pMek model1_data1 0.305171 1 s_pMek_20140430_gel1 s_pMek_20140430_gel1;sigma_pMek control
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pMek model1_data1 0.125647 5.5 s_pMek_20140430_gel1 s_pMek_20140430_gel1;sigma_pMek control
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pMek model1_data1 0.073706 7 s_pMek_20140430_gel1 s_pMek_20140430_gel1;sigma_pMek control
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pMek model1_data1 0.058253 8.5 s_pMek_20140430_gel1 s_pMek_20140430_gel1;sigma_pMek control
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pMek model1_data1 0.066667 10 s_pMek_20140430_gel1 s_pMek_20140430_gel1;sigma_pMek control
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pMek model1_data1 0.22033 0 s_pMek_20140505_gel1 s_pMek_20140505_gel1;sigma_pMek control
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pMek model1_data1 1.683107 0.25 s_pMek_20140505_gel1 s_pMek_20140505_gel1;sigma_pMek control
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pMek model1_data1 1.441176 1 s_pMek_20140505_gel1 s_pMek_20140505_gel1;sigma_pMek control
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pMek model1_data1 0.225572 5.5 s_pMek_20140505_gel1 s_pMek_20140505_gel1;sigma_pMek control
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pMek model1_data1 0.278346 7 s_pMek_20140505_gel1 s_pMek_20140505_gel1;sigma_pMek control
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pMek model1_data1 0.137178 8.5 s_pMek_20140505_gel1 s_pMek_20140505_gel1;sigma_pMek control
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pMek model1_data1 0.196426 10 s_pMek_20140505_gel1 s_pMek_20140505_gel1;sigma_pMek control
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pMek model1_data2 0.121231 0 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek Sorafenib
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pMek model1_data2 0.086929466 1 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek Sorafenib
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pMek model1_data2 0.054910478 5.5 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek Sorafenib
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pMek model1_data2 0.048881617 7 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek Sorafenib
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pMek model1_data2 0.052341248 8.5 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek Sorafenib
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pMek model1_data2 0.052595374 10 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek Sorafenib
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pMek model1_data2 0.155276 0 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek Sorafenib
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pMek model1_data2 0.24 1 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek Sorafenib
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pMek model1_data2 0.12 5.5 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek Sorafenib
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pMek model1_data2 0.12 7 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek Sorafenib
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pMek model1_data2 0.07 8.5 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek Sorafenib
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pMek model1_data2 0.07 10 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek Sorafenib
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pMek model1_data3 1.724493879 1 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek UO126
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pMek model1_data3 1.683168571 5.5 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek UO126
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pMek model1_data3 1.470175735 7 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek UO126
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pMek model1_data3 1.557371739 8.5 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek UO126
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pMek model1_data3 1.559108205 10 s_pMek_20140430_gel2 s_pMek_20140430_gel2;sigma_pMek UO126
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pMek model1_data3 5.857600733 1 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek UO126
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pMek model1_data3 2.857976654 5.5 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek UO126
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pMek model1_data3 4.607660706 7 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek UO126
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pMek model1_data3 2.789397964 8.5 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek UO126
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pMek model1_data3 1.623004546 10 s_pMek_20140505_gel2 s_pMek_20140505_gel2;sigma_pMek UO126

‎Benchmark-Models/Fiedler_BMCSystBiol2016/reformulated/Fiedler_BMCSystBiol2016_rel.yaml‎

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format_version: 1
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parameter_file: parameters_Fiedler_BMCSystBiol2016_rel.tsv
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problems:
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- condition_files:
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- experimentalCondition_Fiedler_BMCSystBiol2016_rel.tsv
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measurement_files:
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- measurementData_Fiedler_BMCSystBiol2016_rel.tsv
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observable_files:
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- observables_Fiedler_BMCSystBiol2016_rel.tsv
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sbml_files:
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- model_Fiedler_BMCSystBiol2016_rel.xml

‎Benchmark-Models/Fiedler_BMCSystBiol2016/reformulated/experimentalCondition_Fiedler_BMCSystBiol2016_rel.tsv‎

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conditionId conditionName Sorafenib UO126
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model1_data1 0 0
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model1_data2 5 0
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model1_data3 0 30

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