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» Graph Transformation in Molecular Biology
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ISMB
1998
13 years 7 months ago
BioSim: A New Qualitative Simulation Environment for Molecular Biology
Traditionally, biochemical systems are modelled usingkinetics anddifferential equationsin a quantitative simulator. However,for manybiological processes detailed quantitative info...
Karsten R. Heidtke, Steffen Schulze-Kremer
SYNASC
2007
IEEE
119views Algorithms» more  SYNASC 2007»
14 years 16 days ago
Graph Rewriting and Strategies for Modeling Biochemical Networks
In this paper, we present a rewriting framework for modeling molecular complexes, biochemical reaction rules, and generation of biochemical networks based on the representation of...
Oana Andrei, Hélène Kirchner
PREMI
2005
Springer
13 years 11 months ago
Computational Molecular Biology of Genome Expression and Regulation
Abstract. Technological advances in experimental and computational molecular biology have revolutionized the whole fields of biology and medicine. Large-scale sequencing, expressio...
Michael Q. Zhang
LATA
2009
Springer
14 years 1 months ago
From Gene Trees to Species Trees through a Supertree Approach
Abstract. Gene trees are leaf-labeled trees inferred from molecular sequences. Due to duplication events arising in genome evolution, gene trees usually have multiple copies of som...
Celine Scornavacca, Vincent Berry, Vincent Ranwez
RECOMB
2004
Springer
14 years 6 months ago
Discovering temporal relations in molecular pathways using protein-protein interactions
The availability of large-scale protein-protein interaction data provides us with many opportunities to study molecular pathways involving proteins. In this paper we propose to mi...
Martin Farach-Colton, Yang Huang, John L. L. Woolf...