---
res:
bibo_abstract:
- "Background\r\n\r\nThe chemical master equation (CME) is a system of ordinary
differential equations that describes the evolution of a network of chemical reactions
as a stochastic process. Its solution yields the probability density vector of
the system at each point in time. Solving the CME numerically is in many cases
computationally expensive or even infeasible as the number of reachable states
can be very large or infinite. We introduce the sliding window method, which computes
an approximate solution of the CME by performing a sequence of local analysis
steps. In each step, only a manageable subset of states is considered, representing
a "window" into the state space. In subsequent steps, the window follows
the direction in which the probability mass moves, until the time period of interest
has elapsed. We construct the window based on a deterministic approximation of
the future behavior of the system by estimating upper and lower bounds on the
populations of the chemical species.\r\nResults\r\n\r\nIn order to show the effectiveness
of our approach, we apply it to several examples previously described in the literature.
The experimental results show that the proposed method speeds up the analysis
considerably, compared to a global analysis, while still providing high accuracy.\r\n\r\n\r\nConclusions\r\n\r\nThe
sliding window method is a novel approach to address the performance problems
of numerical algorithms for the solution of the chemical master equation. The
method efficiently approximates the probability distributions at the time points
of interest for a variety of chemically reacting systems, including systems for
which no upper bound on the population sizes of the chemical species is known
a priori.@eng"
bibo_authorlist:
- foaf_Person:
foaf_givenName: Verena
foaf_name: Wolf, Verena
foaf_surname: Wolf
- foaf_Person:
foaf_givenName: Rushil
foaf_name: Goel, Rushil
foaf_surname: Goel
- foaf_Person:
foaf_givenName: Maria
foaf_name: Mateescu, Maria
foaf_surname: Mateescu
foaf_workInfoHomepage: http://www.librecat.org/personId=3B43276C-F248-11E8-B48F-1D18A9856A87
- foaf_Person:
foaf_givenName: Thomas A
foaf_name: Henzinger, Thomas A
foaf_surname: Henzinger
foaf_workInfoHomepage: http://www.librecat.org/personId=40876CD8-F248-11E8-B48F-1D18A9856A87
orcid: 0000−0002−2985−7724
bibo_doi: 10.1186/1752-0509-4-42
bibo_issue: '42'
bibo_volume: 4
dct_date: 2010^xs_gYear
dct_language: eng
dct_publisher: BioMed Central@
dct_title: Solving the chemical master equation using sliding windows@
...