notesum.ai

Published at November 21

Approximate Constrained Lumping of Chemical Reaction Networks

cs.CE

q-bio.MN

q-bio.QM

Released Date: November 21, 2024

Authors: Alexander Leguizamon-Robayo¹, Antonio Jiménez-Pastor², Micro Tribastone³, Max Tschaikowski¹, Andrea Vandin⁴

Aff.: ¹Aalborg University, Denmark; ²Universidad Politécnica de Madrid, Spain; ³IMT School for Advanced Studies Lucca, Italy; ⁴Sant'Anna School of Advanced Studies, Pisa, Italy; DTU Technical University of Denmark

Arxiv: http://arxiv.org/abs/2411.14242v1

	$\|$ Red. $\|$	Red. ratio(%)	$e_{Rel}(T)$	$e(T)$	$e_{max}$	$\varepsilon$	$\varepsilon/\varepsilon_{\max}$ (%)	Iter.	Time (s)
1) Model: BIOMD102, size: 13, type: P, exact lumping: 13, $\varepsilon_{\max}:$ 3.52E-03
	11	84.6	1.16E+01	1.44E+02	1.44E+02	4.24E-04	1.21E+01	13	0.284
	8	61.5	4.86E+00	6.04E+01	6.78E+01	9.95E-04	2.83E+01	13	0.099
	6	46.2	1.26E+00	1.56E+01	7.39E+01	1.73E-03	4.91E+01	13	0.138
	2	15.4	1.50E+01	1.86E+02	1.86E+02	1.97E-03	5.60E+01	13	0.046
	1	7.7	1.50E+01	1.86E+02	1.86E+02	3.52E-03	1.00E+02	13	0.052
2) Model: BIOMD103, size: 17, type: P, exact lumping: 17, $\varepsilon_{\max}:$ 3.52E-03
	14	82.4	1.02E-02	1.72E+00	1.72E+00	9.89E-04	2.81E+01	13	0.598
	12	70.6	9.25E-01	1.55E+02	1.57E+02	1.60E-03	4.56E+01	13	0.288
	7	41.2	8.52E-01	1.43E+02	1.44E+02	1.64E-03	4.67E+01	13	0.218
	2	11.8	1.82E-01	3.06E+01	3.06E+01	2.00E-03	5.67E+01	13	0.070
3) Model: BIOMD447, size: 13, type: P, exact lumping: 13, $\varepsilon_{\max}:$ 2.45E+01
	11	84.6	1.33E-03	2.02E-05	2.02E-05	4.95E-03	2.02E-02	26	0.173
	9	69.2	1.35E-02	2.04E-04	2.04E-04	3.41E-01	1.39E+00	26	0.122
	7	53.8	8.46E-03	1.28E-04	1.29E-04	3.75E-01	1.53E+00	26	0.123
	6	46.2	6.99E-03	1.06E-04	7.02E-04	1.40E+00	5.71E+00	26	0.105
	3	23.1	1.22E-01	1.86E-03	7.31E-03	1.98E+01	8.10E+01	26	0.056
4) Model: BioNetGen_CCP, size: 87, type: P, exact lumping: 30, $\varepsilon_{\max}:$ 2.83E+00
	30	34.5	5.86E-06	6.11E-05	5.22E-04	6.74E-07	2.38E-05	23	1.807
	10	11.5	3.14E-01	3.27E+00	3.27E+00	2.67E-01	9.44E+00	23	2.959
5) Model: NIHMS80246_S6, size: 24, type: P, exact lumping: 19, $\varepsilon_{\max}:$ 3.13E-01
	19	79.2	3.16E-11	3.16E-09	2.14E-04	5.97E-07	1.91E-04	20	1.370
	17	70.8	8.09E-05	8.09E-03	4.86E+01	2.23E-02	7.13E+00	20	1.948
	14	58.3	8.09E-05	8.09E-03	4.89E+01	2.34E-02	7.49E+00	20	1.478
	9	37.5	1.00E+00	1.00E+02	1.00E+02	3.00E-02	9.58E+00	20	0.809
	8	33.3	1.00E+00	1.00E+02	1.00E+02	1.29E-01	4.10E+01	20	0.586
	1	4.2	1.00E+00	1.00E+02	1.00E+02	3.13E-01	1.00E+02	20	0.454
6) Model: BIOMD437, size: 39, type: R, exact lumping: 21, $\varepsilon_{\max}:$ 7.11E+05
	21	53.8	0.00E+00	0.00E+00	0.00E+00	0.00E+00	0.00E+00	1	0.044
	12	30.8	1.58E-04	2.00E-05	6.66E-05	6.47E-07	9.09E-11	41	3.021
	5	12.8	1.58E-04	2.00E-05	6.66E-05	1.07E+02	1.50E-02	41	3.645
	4	10.3	3.31E-01	4.19E-02	4.29E-02	3.33E+02	4.69E-02	41	3.237
7) Model: BIOMD448, size: 27, type: R, exact lumping: 23, $\varepsilon_{\max}:$ 1.00E+00
	23	85.2	0.00E+00	0.00E+00	0.00E+00	0.00E+00	0.00E+00	1	0.002
	19	70.4	7.45E-08	6.79E-06	2.90E-02	1.60E-02	1.60E+00	21	0.912
	1	3.7	9.21E-01	8.39E+01	8.39E+01	1.00E+00	1.00E+02	21	0.291
8) Model: BIOMD488, size: 68, type: R, exact lumping: 64, $\varepsilon_{\max}:$ 7.50E+10
	59	86.8	2.88E-02	1.05E-02	2.85E-02	1.50E+02	2.00E-07	58	47.800
	50	73.5	1.97E-01	7.20E-02	7.20E-02	7.50E+04	1.00E-04	58	46.542
	9	13.2	9.06E+00	3.30E+00	3.61E+00	1.50E+06	2.00E-03	58	7.276
	8	11.8	9.06E+00	3.30E+00	3.61E+00	6.00E+07	8.00E-02	58	9.505