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Written by Anne SIEGEL
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Hints on research activities
My research program is to
identify and take benefit of properties of dynamical systems in several
domains of mathematics, computer sciences and biology where dynamics
appears, even if somehow hidden. My work consists in identifying
questions related to systems trajectories, then making use of the
properties of these trajectories together with algorithmic computations
in order to answer to questions in the domain where the dynamics was
exhibited.
In theoretical computer science, this approach
allowed characterizing some properties of expansions of real number in
non-integer basis (beta-numeration and Dumont-Thomas substitution
system). This also allowed us to propose a strategy of generation for
discrete plane. Underlying dynamics are additions modulo 1 (toral
additions) and fractal geometry.
In bioinformatics, I am first
working on biological network construction, inducing a strong reflexion
on representation abstractions. I also have conducted works on a
constraint-based formalism in order to perform confrontations between
large-scale data from molecular biology (transcriptomic, chip-chip,
CGH) and knowledge models. Our methodology allows us to introduce
dynamical (actually steady states comparisons) in data analysis, by
mimic automatic reasoning over variational data.
Main results can be summarized as
- Constraints-based formalism to perform variation-like automatic reasoning over large-scale data from molecular biology.
- Construction
of model hierarchies for data interpretations (fatty acid metabolism
regulation, initiation of sea-urchin translation).
- Graph
description of fractal boundaries and topological properties.
Application to Markov partitions for toral automorphisms and purely
periodic beta-expansions.
- Combinatorial rules to iterately build discrete plane by making use of Z2 action.
Additional links
- French summary of activites pdf
- Paper abstracts in systems biology
- Paper abstracts in numeration and symbolic dynamical systems Overview of work and paper abstracts
- Sofware : Bioquali (analysis
of compatibilities between an interaction graph and micro-array data)
Web access
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