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Título:
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Cooperativity and Saturation in Biochemical Networks: A Saturable Formalism Using Taylor Series Approximations
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Autor/a:
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Sorribas Tello, Albert; Hernández Bermejo, Benito; Vilaprinyo Terré, Ester; Alves, Rui
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Notas:
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Cooperative and saturable systems are common
in molecular biology. Nevertheless, common canonical
formalisms for kinetic modeling that are theoretically well
justified do not have a saturable form. Modeling and fitting
data from saturable systems are widely done using Hill-like
equations. In practice, there is no theoretical justification for
the generalized use of these equations, other than their
ability to fit experimental data. Thus it is important to find
a canonical formalism that is (a) theoretically well supported,
(b) has a saturable functional form, and (c) can be
justifiably applicable to any biochemical network. Here we
derive such a formalism using Taylor approximations in a
special transformation space defined by power-inverses and
logarithms of power-inverses. This formalism is generalized
for processes with n-variables, leading to a useful mathematical
representation for molecular biology: the Saturable
and Cooperative Formalism (SC formalism). This formalism
provides an appropriate representation that can be used for
modeling processes with cooperativity and saturation. We
also show that the Hill equation can be seen as a special case
within this formalism. Parameter estimation for the SC
formalism requires information that is also necessary to
build Power-Law models, Metabolic Control Analysis
descriptions or (log)linear and Lin-log models. In addition,
the saturation fraction of the relevant processes at the
operating point needs to be considered. The practical use
of the SC formalism for modeling is illustrated with a few
examples. Similar models are built using different formalisms
and compared to emphasize advantages and limitations
of the different approaches.
A.S., E.V., and R.A. want to acknowledge the financial support of the Spanish Ministerio de Educación y Ciencia (grant BFU2005-0234). B.H.-B. would like to thank the other authors and the Universitat de Lleida for the kind hospitality and financial support provided in 2005 during a stay in which part of this work was done. RA was supported by a Ramon y Cajal award from the Spanish Ministerio de Educacion y Ciencia. |
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Materia(s):
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-System Biology
-Mathematical modeling
-Cooperativity
-Biochemical System Theory |
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Derechos:
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(c) Wiley Periodicals, Inc., 2007
info:eu-repo/semantics/restrictedAccess |
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Tipo de documento:
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article
publishedVersion |
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Editor:
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Wiley
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Compartir:
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