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» An integrative approach to modeling biological networks
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PADS
2003
ACM
15 years 11 months ago
Maya: a Multi-Paradigm Network Modeling Framework
This paper presents Maya, a multi-paradigm, scalable and extensible network modeling framework for emulating distributed applications. A novel three-tier architecture is proposed ...
Junlan Zhou, Zhengrong Ji, Mineo Takai, Rajive Bag...
BMCBI
2007
167views more  BMCBI 2007»
15 years 6 months ago
A stochastic differential equation model for transcriptional regulatory networks
Background: This work explores the quantitative characteristics of the local transcriptional regulatory network based on the availability of time dependent gene expression data se...
Adriana Climescu-Haulica, Michelle D. Quirk
BMCBI
2011
14 years 10 months ago
Learning sparse models for a dynamic Bayesian network classifier of protein secondary structure
Background: Protein secondary structure prediction provides insight into protein function and is a valuable preliminary step for predicting the 3D structure of a protein. Dynamic ...
Zafer Aydin, Ajit Singh, Jeff Bilmes, William Staf...
CEC
2010
IEEE
15 years 1 months ago
Parameter estimation with term-wise decomposition in biochemical network GMA models by hybrid regularized Least Squares-Particle
High-throughput analytical techniques such as nuclear magnetic resonance, protein kinase phosphorylation, and mass spectroscopic methods generate time dense profiles of metabolites...
Prospero C. Naval, Luis G. Sison, Eduardo R. Mendo...
BMCBI
2005
125views more  BMCBI 2005»
15 years 6 months ago
A simple approach for protein name identification: prospects and limits
Background: Significant parts of biological knowledge are available only as unstructured text in articles of biomedical journals. By automatically identifying gene and gene produc...
Katrin Fundel, Daniel Güttler, Ralf Zimmer, J...