{"text_format":"3","workbook":"xls","n_sheets":3,"sheets":["Example_1","Example_2","Example_3"],"read":"whole","date_system":"1900","formulas":"cached_only"}

{"sheet":"Example_1","index":0,"n_rows":133,"n_cols":13,"rows_kept":133,"flags":["formulas_cached_only"]}
["Example 1: a simple gene regulation network"]
[]
["a) Data of the original reaction network (Figure 1.a)"]
[]
["Y",2,0,0,0,0,0,0,0,0,1,1]
[null,0,1,1,0,0,0,0,0,0,0,0]
[null,0,0,1,0,0,1,1,0,0,0,0]
[null,0,0,0,1,1,0,0,0,0,0,0]
[null,0,0,0,0,1,0,1,1,0,0,1]
[]
["Ak",-10000000,10000000,0,0,0,0,0,0,0,0,0]
[null,10000000,-10000000,0,0,0,0,0,0,0,0,0]
[null,0,0,-10000000,10000000,0,0,0,0,0,0,0]
[null,0,0,10000000,-10000002,0,0,0,0,0,0,0]
[null,0,0,0,1.7,0,0,0,0,0,0,0]
[null,0,0,0,0,0,-0.025,0,0,0,0,0]
[null,0,0,0,0,0,0.025,0,0,0,0,0]
[null,0,0,0,0,0,0,0,-0.6000000000000001,0,0,0]
[null,0,0,0,0,0,0,0,0.1,0,0.05,0]
[null,0,0,0,0,0,0,0,0,0,-0.05,0]
[null,0,0,0,0,0,0,0,0.5,0,0,0]
[]
[]
["b) Data of dense realization (Figure 1.b)"]
[]
["Ak",-10000000,10000000,0,1e-12,0,5e-13,0,0.08,0,0.01,0]
[null,10000000,-10000000,0,0,0,-1e-12,0,-1e-12,0,1e-12,0]
[null,0,0,-10000000,10000000,0,-1e-12,0,-1e-12,0,0,0]
[null,0,0,10000000,-10000002,0,-1e-12,0,-1e-12,0,1e-12,0]
[null,0,0,0,1.7,0,2e-12,0,-1e-12,0,0,0]
[null,0,0,0,-1e-12,0,-0.025,0,-1e-12,0,1e-12,0]
[null,0,0,0,0,0,0.025,0,-1e-12,0,0,0]
[null,0,0,0,-1e-12,0,-5e-13,0,-0.43,0,2e-12,0]
[null,0,0,0,-1e-12,0,-1e-12,0,0.01,0,0.06,0]
[null,0,0,0,-1e-12,0,0,0,0.01,0,-0.07,0]
[null,0,0,0,0,0,0,0,0.33,0,-1e-12,0]
[]
[]
["c) Data of sparse realization 1 (Figure 2.a)"]
[]
["Ak",-10000000,10000000,0,1.5e-12,0,1e-12,0,0,0,-1e-12,0]
[null,10000000,-10000000,0,0,0,-1e-12,0,0,0,2e-12,0]
[null,0,0,-10000000,10000000,0,-1e-12,0,-1e-12,0,0,0]
[null,0,0,10000000,-10000002,0,-1e-12,0,0,0,2e-12,0]
[null,0,0,0,1.7,0,3e-12,0,-1e-12,0,0,0]
[null,0,0,0,-1e-12,0,-0.025,0,0,0,2e-12,0]
[null,0,0,0,0,0,0.025,0,-1e-12,0,0,0]
[null,0,0,0,-1e-12,0,-3.0000021999999998e-12,0,-0.6000000000000001,0,3e-12,0]
[null,0,0,0,-1e-12,0,-1e-12,0,0.1,0,0.05,0]
[null,0,0,0,-1e-12,0,0,0,1e-12,0,-0.05,0]
[null,0,0,0,0,0,0,0,0.5,0,-1e-12,0]
[]
[]
["d) Data of sparse realization 2 (Figure 2.b)"]
[]
["Ak",-10000000,10000000,0,1.5e-12,0,1e-12,0,0.1,0,-1e-12,0]
[null,10000000,-10000000,0,0,0,-1e-12,0,-1e-12,0,2e-12,0]
[null,0,0,-10000000,10000000,0,-1e-12,0,-1e-12,0,0,0]
[null,0,0,10000000,-10000002,0,-1e-12,0,-1e-12,0,2e-12,0]
[null,0,0,0,1.7,0,3e-12,0,-1e-12,0,0,0]
[null,0,0,0,-1e-12,0,-0.025,0,-1e-12,0,2e-12,0]
[null,0,0,0,0,0,0.025,0,-1e-12,0,0,0]
[null,0,0,0,-1e-12,0,-3.0000021999999998e-12,0,-0.4,0,3e-12,0]
[null,0,0,0,-1e-12,0,-1e-12,0,-1e-12,0,0.05,0]
[null,0,0,0,-1e-12,0,0,0,-1e-12,0,-0.05,0]
[null,0,0,0,0,0,0,0,0.30000000000000004,0,-1e-12,0]
[]
[]
["e) Data of sparse realization 2 (Figure 2.c)"]
[]
["Ak",-10000000,10000000,0,1.5e-12,0,1e-12,0,0,0,-1e-12,0]
[null,10000000,-10000000,0,0,0,-1e-12,0,0,0,2e-12,0]
[null,0,0,-10000000,10000000,0,-1e-12,0,0,0,0,0]
[null,0,0,10000000,-10000002,0,-1e-12,0,-1e-12,0,2e-12,0]
[null,0,0,0,1.7,0,3e-12,0,-1e-12,0,0,0]
[null,0,0,0,-1e-12,0,-0.025,0,0,0,2e-12,0]
[null,0,0,0,0,0,0.025,0,-1e-12,0,0,0]
[null,0,0,0,-1e-12,0,-3.0000021999999998e-12,0,-0.5,0,3e-12,0]
[null,0,0,0,-1e-12,0,-1e-12,0,0,0,0.05,0]
[null,0,0,0,-1e-12,0,0,0,0.1,0,-0.05,0]
[null,0,0,0,0,0,0,0,0.4,0,-1e-12,0]
[]
[]
["f) Original network structure with modified rate coefficients"]
[]
["Ak",-18.9,7.1,0,0,0,0,0,0,0,0,0]
[null,18.9,-7.1,0,0,0,0,0,0,0,0,0]
[null,0,0,-15.4,12.7,0,0,0,0,0,0,0]
[null,0,0,15.4,-23.3,0,0,0,0,0,0,0]
[null,0,0,0,10.6,0,0,0,0,0,0,0]
[null,0,0,0,0,0,-3.5,0,0,0,0,0]
[null,0,0,0,0,0,3.5,0,0,0,0,0]
[null,0,0,0,0,0,0,0,-15.3,0,0,0]
[null,0,0,0,0,0,0,0,11.3,0,9.1,0]
[null,0,0,0,0,0,0,0,0,0,-9.1,0]
[null,0,0,0,0,0,0,0,4,0,0,0]
[]
[]
["g) Dense realization with modified rate coefficients"]
[]
["Ak",-18.9,7.1,0,0,0,0,0,1.9,0,0.1,0]
[null,18.9,-7.1,0,-1.7763568000000001e-15,0,0,0,0,0,0,0]
[null,0,0,-15.4,12.7,0,0,0,0,0,0,0]
[null,0,0,15.4,-23.3,0,0,0,0,0,0,0]
[null,0,0,0,10.6,0,0,0,0,0,0,0]
[null,0,0,0,-1.7763568000000001e-15,0,-3.5,0,0,0,0,0]
[null,0,0,0,0,0,3.5,0,0,0,0,0]
[null,0,0,0,0,0,0,0,-11.4,0,0,0]
[null,0,0,0,0,0,0,0,9.3,0,9.2,0]
[null,0,0,0,0,0,0,0,0.1,0,-9.3,0]
[null,0,0,0,0,0,0,0,0.1,0,0,0]
[]
[]
["h) Dense realization with original rate coefficients and modified structure (complex X2+X4 is added to the network)"]
[]
["Y",2,1,1,0,0,0,0,0,0,0,0,0]
[null,0,0,0,1,1,0,0,0,0,0,0,1]
[null,0,0,0,1,0,1,1,0,0,0,0,0]
[null,0,0,0,0,0,0,0,1,1,0,0,1]
[null,0,1,0,0,0,1,0,1,0,1,0,0]
[]
["Ak",-10000000,0,0.01,0,10000000,0,-1e-12,0,-1e-12,0.08,0,0]
[null,0,0,-1e-12,0,0,0,5e-12,0,0,0.33,0,0]
[null,0,0,-0.07,0,0,0,-1e-12,0,-1e-12,0.01,0,0]
[null,0,0,1e-12,-10000000,-1e-12,0,-1e-12,0,10000000,-1e-12,0,0]
[null,10000000,0,0,0,-10000000,0,-1e-12,0,0,-1e-12,0,0]
[null,0,0,0,0,0,0,0.025,0,0.01,-1e-12,0,0]
[null,0,0,0,0.01,0,0,-0.025,0,0.01,-1e-12,0,0]
[null,0,0,0,0,0,0,0,0,1.69,-1e-12,0,0]
[null,0,0,1e-12,10000000,0,0,-1e-12,0,-10000002,-1e-12,0,0]
[null,0,0,2e-12,0,0,0,0,0,0,-0.43,0,0]
[null,0,0,0.06,0,0,0,-1e-12,0,-1e-12,0.01,0,0]
[null,0,0,0,0.01,0,0,-1e-12,0,0.02,-1e-12,0,0]

{"sheet":"Example_2","index":1,"n_rows":52,"n_cols":18,"rows_kept":52,"flags":["formulas_cached_only"]}
["Example 2: a biochemical switch in yeast cells"]
[]
["a) Data of the original reaction network (Figure 4.a)"]
[]
["Y",0,0,1,1,0,0,0,0,0,0,0,0,0,1,0,0,0]
[null,1,0,0,0,0,0,1,0,0,0,0,1,0,0,0,0,0]
[null,0,0,0,1,0,1,1,0,1,0,1,0,0,0,0,0,0]
[null,0,0,0,0,1,0,0,0,1,0,0,0,0,0,0,0,1]
[null,0,0,0,0,0,0,0,1,0,0,1,0,0,0,1,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,1,0,1,1,0,1]
[null,0,0,0,0,0,0,0,0,0,0,0,0,1,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0]
[null,0,0,0,0,0,0,0,0,0,1,0,0,0,0,0,0,0]
[]
["Ak",-6.7,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,6.7,-4.1,3.2,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,4.1,-3.2,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,-7.3,3.8,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,7.3,-6.2,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,2.4,0,0,6.2,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,-4.5,5.1,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,4.5,-11.3,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0,0,-7.7,8.6,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0,0,7.7,-18.1,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,9.5,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,-2.4,4.9,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,2.4,-10.7,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,5.8,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,-10.2,6.3,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,10.2,-14.8,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,8.5,0]
[]
[]
["b) Data of the dense realization (Figure 4.b)"]
[]
["Ak",-6.7,0,0,0,0,0,0.1,0.1,0,0,0,0,0,0,0,0,0]
[null,6.7,-4.1,3.2,0,0.1,0,0,0.1,0,0,0,0,0,0,0,0,0]
[null,0,4.1,-3.2,0.1,0.1,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,-7.4,3.7,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,7.2,-6.4,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,2.3,0,0,6.1,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,-4.6,5,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,4.4,-11.5,0,0,0,0,0,0,0,-8.8817842e-16,0]
[null,0,0,0,0.1,0.2,0,0,0,-7.7,8.6,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0,0,7.7,-18.1,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0.1,0.2,0,9.5,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,-2.4,4.9,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,2.4,-10.7,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,5.8,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,-10.2,6.3,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,10.2,-14.8,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,8.5,0]

{"sheet":"Example_3","index":2,"n_rows":246,"n_cols":52,"rows_kept":246,"flags":["formulas_cached_only"]}
["Example 3: a repressilator with 5 nodes"]
[]
["a) Data of the original reaction network (with uniformly distributed random non-integer parameters in the range 1-20)"]
[]
["Y",1,0,1,0,0,0,0,1,1,0,0,0,1,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,0,0,0,0]
[null,1,0,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,1,1,0,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,1,0,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,1,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,1,0,1,0,0,0,0,1,1,0,0,0,1,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,1,0,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,1,1,0,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,1,0,0,0,0,1,1,0,0,0,1,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,1,0,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,1,0,0,0,0,1,1,0,0,0,1,0,1,0,0,0,0,0,0,1,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,1,0,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]
[null,0,0,0,1,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,1,0,0,0,0,1,1,0,0,0,0,1,0]
[null,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,0,1,0,0,0,0,0,0,0,0,0,0,0]
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[]
[]
["b) Data of a dense realization of case a)"]
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[]
[]
["c) Data of the original network (with uniformly distributed random non-integer parameters in the range 0-10)"]
[]
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[]
[]
["d) Data of a dense realization of case b)"]
[]
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