Instruct: Identify the main and secondary category of Arxiv papers based on the titles and abstracts
Query: Geometric analysis of pathways dynamics: application to versatility of
  TGF-{\beta} receptors   We propose a new geometric approach to describe the qualitative dynamics of
chemical reactions networks. By this method we identify metastable regimes,
defined as low dimensional regions of the phase space close to which the
dynamics is much slower compared to the rest of the phase space. Given the
network topology and the orders of magnitude of kinetic parameters, the number
of such metastable regimes is finite. The dynamics of the network can be
described as a sequence of jumps from one metastable regime to another. We show
that a geometrically computed connectivity graph restricts the set of possible
jumps. We also provide finite state machine (Markov chain) models for such
dynamic changes. Applied to signal transduction models, our approach unravels
dynamical and functional capacities of signaling pathways, as well as
parameters responsible for specificity of the pathway response. In particular,
for a model of TGF$\beta$ signalling, we find that the ratio of TGFBR1 to
TGFBR2 concentrations can be used to discriminate between metastable regimes.
Using expression data from the NCI60 panel of human tumor cell lines, we show
that aggressive and non-aggressive tumour cell lines function in different
metastable regimes and can be distinguished by measuring the relative
concentrations of receptors of the two types.

36
The categories of this paper are: cmp-lg
28
The categories of this paper are: alg-geom
16
The categories of this paper are: stat
21
The categories of this paper are: adap-org
14
The categories of this paper are: math-ph
37
The categories of this paper are: supr-con
32
The categories of this paper are: atom-ph
34
The categories of this paper are: chem-ph
17
The categories of this paper are: q-fin
30
The categories of this paper are: q-alg
4
The categories of this paper are: cond-mat
31
The categories of this paper are: ao-sci
24
The categories of this paper are: dg-ga
11
The categories of this paper are: hep-lat
0
The categories of this paper are: hep-ph
12
The categories of this paper are: nucl-th