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BMCBI
2006
145views more  BMCBI 2006»
13 years 11 months ago
GEM System: automatic prototyping of cell-wide metabolic pathway models from genomes
Background: Successful realization of a "systems biology" approach to analyzing cells is a grand challenge for our understanding of life. However, current modeling appro...
Kazuharu Arakawa, Yohei Yamada, Kosaku Shinoda, Yo...
BMCBI
2008
115views more  BMCBI 2008»
13 years 11 months ago
Systems biology driven software design for the research enterprise
Background: In systems biology, and many other areas of research, there is a need for the interoperability of tools and data sources that were not originally designed to be integr...
John Boyle, Christopher C. Cavnor, Sarah A. Killco...
BMCBI
2010
178views more  BMCBI 2010»
13 years 11 months ago
Applications of a formal approach to decipher discrete genetic networks
Background: A growing demand for tools to assist the building and analysis of biological networks exists in systems biology. We argue that the use of a formal approach is relevant...
Fabien Corblin, Eric Fanchon, Laurent Trilling
BIB
2007
137views more  BIB 2007»
13 years 11 months ago
Current progress in network research: toward reference networks for key model organisms
The collection of multiple genome-scale datasets is now routine, and the frontier of research in systems biology has shifted accordingly. Rather than clustering a single dataset t...
Balaji S. Srinivasan, Nigam H. Shah, Jason Flannic...
CSB
2003
IEEE
135views Bioinformatics» more  CSB 2003»
14 years 4 months ago
Stepping Up the Pace of Discovery: the Genomes to Life Program
Genomes to Life (GTL), the U.S. Department of Energy Office of Science’s systems biology program, focuses on environmental microbiology. Over the next 10 to 20 years, GTL’s ke...
Marvin Frazier, David Thomassen, Aristides Patrino...
EMO
2005
Springer
108views Optimization» more  EMO 2005»
14 years 5 months ago
Multi-objective Model Optimization for Inferring Gene Regulatory Networks
With the invention of microarray technology, researchers are able to measure the expression levels of ten thousands of genes in parallel at various time points of a biological proc...
Christian Spieth, Felix Streichert, Nora Speer, An...
AB
2007
Springer
14 years 5 months ago
Algebraic Systems Biology: Theses and Hypotheses
What is systems biology? What can biologists gain from an attempt to algebraize the questions in systems biology? Starting with plausible biological theses, can one algebraically m...
Bud Mishra
FM
2009
Springer
138views Formal Methods» more  FM 2009»
14 years 6 months ago
What Can Formal Methods Bring to Systems Biology?
This position paper argues that the operational modelling approaches from the formal methods community can be applied fruitfully within the systems biology domain. The results can ...
Nicola Bonzanni, K. Anton Feenstra, Wan Fokkink, E...

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adambyronPostdoctoral
University of Manchester
adambyron
A biochemist and cell biologist using proteomic approaches to investigate mechanisms of cell adhesion.

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TanjaProfessor, Assistant
Biotechnical Faculty
Tanja