Understanding complex systems often requires a bottom-up analysis towards a systems
biology approach. The need to investigate a system, not only as individual components but …

A survey of the use of graph theoretical techniques in Biology is presented. In particular,
recent work on identifying and modelling the structure of bio-molecular networks is …

E. coli is widely used for systems biology research; there exists a need, however, for tools
that can be used to accurately and comprehensively measure expression dynamics in …

Abstract EcoCyc (http://EcoCyc. org) provides a comprehensive encyclopedia of Escherichia
coli biology. EcoCyc integrates information about the genome, genes and gene products; …

The evolutionary success of an organism is a testament to its inherent capacity to keep pace
with environmental conditions that change over short and long periods. Mechanisms …

It has been more than 10 years since the first bacterial genome sequence was published.
Hundreds of bacterial genome sequences are now available for comparative genomics, and …

The annotation of the Escherichia coli K-12 genome in the EcoCyc database is one of the
most accurate, complete and multidimensional genome annotations. Of the 4460 E. coli …

Background Few genome-scale models of organisms focus on the regulatory networks and
none of them integrates all known levels of regulation. In particular, the regulations involving …

Pharmaceuticals are known to improve the quality of life by curing and preventing diseases.
However, these pharmaceutical products, when it diffuses through the environment by …

Background Most bacterial genes were acquired by horizontal gene transfer from other
bacteria instead of being inherited by continuous vertical descent from an ancient ancestor …