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Figure 5 | BMC Bioinformatics

Figure 5

From: A microarray data-based semi-kinetic method for predicting quantitative dynamics of genetic networks

Figure 5

Procedure for estimating the parameters of Eqs. (2) and (4). The time derivative of an RNA level is the sum of the transcription rate and the degradation rate of RNA (top centre). The degradation rate is the product of the RNA level and the first-order degradation constant (centre left). Subtracting the degradation rate from the time derivative of microarray data, results in the RNA synthesis rate (centre). The time-series of R values are yielded by normalizing the synthesis rate as R(t = 0) = 1 (centre right). Eq. (3) is a mathematical representation of this procedure. Provided the time-series of the R values of regulators and target genes, the time delay Ï„ i between the regulators and the target genes are calculated using the local clustering method[24]. Finally, a regression analysis of the time delay-corrected R time-series (bottom right) provides least-squares estimate of the coefficients in Eqs. (2) and (4) (bottom left).

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