[HTML][HTML] Developments in the tools and methodologies of synthetic biology

R Kelwick, JT MacDonald, AJ Webb… - … in bioengineering and …, 2014 - frontiersin.org
Synthetic biology is principally concerned with the rational design and engineering of
biologically based parts, devices, or systems. However, biological systems are generally …

[HTML][HTML] Improving collaboration by standardization efforts in systems biology

A Dräger, BØ Palsson - Frontiers in bioengineering and …, 2014 - frontiersin.org
Collaborative genome-scale reconstruction endeavors of metabolic networks would not be
possible without a common, standardized formal representation of these systems. The ability …

[HTML][HTML] COMBINE archive and OMEX format: one file to share all information to reproduce a modeling project

FT Bergmann, R Adams, S Moodie, J Cooper… - BMC …, 2014 - Springer
Background With the ever increasing use of computational models in the biosciences, the
need to share models and reproduce the results of published studies efficiently and easily is …

[HTML][HTML] Community-driven development for computational biology at Sprints, Hackathons and Codefests

S Möller, E Afgan, M Banck, RJP Bonnal, T Booth… - BMC …, 2014 - Springer
Background Computational biology comprises a wide range of technologies and
approaches. Multiple technologies can be combined to create more powerful workflows if …

Directed acyclic graph-based technology mapping of genetic circuit models

N Roehner, CJ Myers - ACS synthetic biology, 2014 - ACS Publications
As engineering foundations such as standards and abstraction begin to mature within
synthetic biology, it is vital that genetic design automation (GDA) tools be developed to …

Composable modular models for synthetic biology

G Misirli, J Hallinan, A Wipat - ACM Journal on Emerging Technologies …, 2014 - dl.acm.org
Modelling and computational simulation are crucial for the large-scale engineering of
biological circuits since they allow the system under design to be simulated prior to …

A methodology to annotate systems biology markup language models with the synthetic biology open language

N Roehner, CJ Myers - ACS synthetic biology, 2014 - ACS Publications
Recently, we have begun to witness the potential of synthetic biology, noted here in the form
of bacteria and yeast that have been genetically engineered to produce biofuels …

[HTML][HTML] Parts & pools: a framework for modular design of synthetic gene circuits

MA Marchisio - Frontiers in Bioengineering and Biotechnology, 2014 - frontiersin.org
Published in 2008, Parts & Pools represents one of the first attempts to conceptualize the
modular design of bacterial synthetic gene circuits with Standard Biological Parts (DNA …

A rule-based design specification language for synthetic biology

E Oberortner, S Bhatia, E Lindgren… - ACM Journal on …, 2014 - dl.acm.org
Synthetic Biology is an engineering discipline where parts of DNA sequences are composed
into novel, complex systems that execute a desired biological function. Functioning and well …

Synthetic nanocarriers as a new paradigm

FA Shiekh - Nanomedicine, 2014 - Taylor & Francis
Opinion Shiekh been explored to their full potential [34]. Importantly, a revolution in
nanotechnology is pushing personalized treatment closer than ever before to reality and …