Articles
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Citation: BMC Systems Biology 2007 1(Suppl 1):P84
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Function prediction of a newly extracted protein from a newly extracted lassa virus gene
Citation: BMC Systems Biology 2007 1(Suppl 1):P81 -
A probabilistic context-free grammar for the detection of binding sites from a protein sequence
Citation: BMC Systems Biology 2007 1(Suppl 1):P78 -
Identification of phenotypes in patient microarrays
Citation: BMC Systems Biology 2007 1(Suppl 1):P75 -
Binding site locations and interaction of the isolated middle loop of snake neurotoxin I with muscle type nicotinic acetylcholine receptor: molecular dynamics and docking simulation study
Citation: BMC Systems Biology 2007 1(Suppl 1):P73 -
The NetBuilder' project: development of a tool for constructing, simulating, evolving, and analysing complex regulatory networks
Citation: BMC Systems Biology 2007 1(Suppl 1):P72 -
Data mining techniques in a CGH-based breast cancer subtype profiling: an immune perspective with comparative study
Citation: BMC Systems Biology 2007 1(Suppl 1):P70 -
Design of novel semisynethetic metalloenzyme from thermolysin
Citation: BMC Systems Biology 2007 1(Suppl 1):P68 -
Inferring context-sensitive Probabilistic Boolean Networks from gene expression data under multi-biological conditions
Citation: BMC Systems Biology 2007 1(Suppl 1):P63 -
A parallel algorithm for de novo peptide sequencing
Citation: BMC Systems Biology 2007 1(Suppl 1):P61 -
Less is more: the battle of Moore's law against Bremermann's limit on the field of systems biology
Citation: BMC Systems Biology 2007 1(Suppl 1):P53 -
Discrimination of proteins using graph theoretic properties
Citation: BMC Systems Biology 2007 1(Suppl 1):P49 -
A computational tool for directing Taxus spp. cell culture metabolism from growth to Taxol®, a diterpene alkaloid, production
Citation: BMC Systems Biology 2007 1(Suppl 1):P47 -
Huntington's disease: from experimental results to interaction networks, patho-pathway construction and disease hypothesis
Citation: BMC Systems Biology 2007 1(Suppl 1):P45 -
Context sensitivity in individual-based modeling
Citation: BMC Systems Biology 2007 1(Suppl 1):P44 -
Metabolic flux analysis for directing metabolism of Streptomyces olindensis from growth to anti-tumor drug (cosmomycin) production
Citation: BMC Systems Biology 2007 1(Suppl 1):P43 -
DNA interaction with sperm cells: ODE model
Citation: BMC Systems Biology 2007 1(Suppl 1):P42 -
Computational modelling of chemotaxis in cooperative phenomena in bacterial populations
Citation: BMC Systems Biology 2007 1(Suppl 1):P41 -
ECOLITASTER: cellular biosensor
Citation: BMC Systems Biology 2007 1(Suppl 1):P38 -
Set theoretical and algebraic model for redundancies in the genetic code
Citation: BMC Systems Biology 2007 1(Suppl 1):P34 -
MaGnET: a software tool for integrated visualisation of functional genomic data relating to the malaria parasite
Citation: BMC Systems Biology 2007 1(Suppl 1):P32 -
MicroRNA sequence and expression database
Citation: BMC Systems Biology 2007 1(Suppl 1):P29 -
How to formalise the meaning of a bio-model: a case study
Citation: BMC Systems Biology 2007 1(Suppl 1):P28 -
Designing a chemical program using chemical organization theory
Citation: BMC Systems Biology 2007 1(Suppl 1):P26 -
Abstract analysis of pathways using the BN++ software framework
Citation: BMC Systems Biology 2007 1(Suppl 1):P24 -
Predicting implicit associated cancer genes from OMIM and MEDLINE by a new probabilistic model
Citation: BMC Systems Biology 2007 1(Suppl 1):P16 -
Computational design of proteins with new functions
Citation: BMC Systems Biology 2007 1(Suppl 1):S15 -
Progression of oral carcinomas revealed by spectral reordering of a bipartite graph
Citation: BMC Systems Biology 2007 1(Suppl 1):P12 -
Arsenic biosenseor: a step further
Citation: BMC Systems Biology 2007 1(Suppl 1):S11 -
A global statistical test for improved detection of gene activity
Citation: BMC Systems Biology 2007 1(Suppl 1):P10 -
Integration and analysis of heterogeneous microarray data sources for supporting drug target identification in atherosclerosis
Citation: BMC Systems Biology 2007 1(Suppl 1):P9 -
Potential role of the glyoxalase pathway as a drug target in Leishmania infantum: an exact steady-state model analysis
Citation: BMC Systems Biology 2007 1(Suppl 1):S8 -
SABIO-RK: a database for biochemical reactions and their kinetics
Citation: BMC Systems Biology 2007 1(Suppl 1):S6 -
Visualizing regulatory interactions in metabolic networks
Citation: BMC Systems Biology 2007 1(Suppl 1):P5 -
Modelling genetic regulatory networks from specified behaviours
Citation: BMC Systems Biology 2007 1(Suppl 1):S4 -
Effect of microarray data heterogeneity on regulatory gene module discovery
Citation: BMC Systems Biology 2007 1(Suppl 1):S2 -
A search engine to identify pathway genes from expression data on multiple organisms
The completion of several genome projects showed that most genes have not yet been characterized, especially in multicellular organisms. Although most genes have unknown functions, a large collection of data i...
Citation: BMC Systems Biology 2007 1:20 -
Study of gene function based on spatial co-expression in a high-resolution mouse brain atlas
The Allen Brain Atlas (ABA) project systematically profiles three-dimensional high-resolution gene expression in postnatal mouse brains for thousands of genes. By unveiling gene behaviors at both the cellular ...
Citation: BMC Systems Biology 2007 1:19 -
Effect of carbon source perturbations on transcriptional regulation of metabolic fluxes in Saccharomyces cerevisiae
Control effective flux (CEF) of a reaction is the weighted sum of all fluxes through that reaction, derived from elementary flux modes (EFM) of a metabolic network. Change in CEFs under different environmental...
Citation: BMC Systems Biology 2007 1:18 -
An in silico model of the ubiquitin-proteasome system that incorporates normal homeostasis and age-related decline
The ubiquitin-proteasome system is responsible for homeostatic degradation of intact protein substrates as well as the elimination of damaged or misfolded proteins that might otherwise aggregate. During ageing...
Citation: BMC Systems Biology 2007 1:17 -
Predicting the connectivity of primate cortical networks from topological and spatial node properties
The organization of the connectivity between mammalian cortical areas has become a major subject of study, because of its important role in scaffolding the macroscopic aspects of animal behavior and intelligen...
Citation: BMC Systems Biology 2007 1:16 -
Simultaneous clustering of gene expression data with clinical chemistry and pathological evaluations reveals phenotypic prototypes
Commonly employed clustering methods for analysis of gene expression data do not directly incorporate phenotypic data about the samples. Furthermore, clustering of samples with known phenotypes is typically pe...
Citation: BMC Systems Biology 2007 1:15 -
Dynamics of in silico leukocyte rolling, activation, and adhesion
We present a multilevel, agent based, in silico model that represents the dynamics of rolling, activation, and adhesion of individual leukocytes in vitro. Object-oriented software components were designed, ver...
Citation: BMC Systems Biology 2007 1:14 -
Systems biology by the rules: hybrid intelligent systems for pathway modeling and discovery
Expert knowledge in journal articles is an important source of data for reconstructing biological pathways and creating new hypotheses. An important need for medical research is to integrate this data with hig...
Citation: BMC Systems Biology 2007 1:13 -
Bioinformatics strategies for lipidomics analysis: characterization of obesity related hepatic steatosis
Lipids are an important and highly diverse class of molecules having structural, energy storage and signaling roles. Modern analytical technologies afford screening of many lipid molecular species in parallel....
Citation: BMC Systems Biology 2007 1:12 -
Reconstructing gene-regulatory networks from time series, knock-out data, and prior knowledge
Cellular processes are controlled by gene-regulatory networks. Several computational methods are currently used to learn the structure of gene-regulatory networks from data. This study focusses on time series ...
Citation: BMC Systems Biology 2007 1:11 -
In silico pathway reconstruction: Iron-sulfur cluster biogenesis in Saccharomyces cerevisiae
Current advances in genomics, proteomics and other areas of molecular biology make the identification and reconstruction of novel pathways an emerging area of great interest. One such class of pathways is invo...
Citation: BMC Systems Biology 2007 1:10 -
Decision tree modeling predicts effects of inhibiting contractility signaling on cell motility
Computational models of cell signaling networks typically are aimed at capturing dynamics of molecular components to derive quantitative insights from prior experimental data, and to make predictions concernin...
Citation: BMC Systems Biology 2007 1:9 -
Identification of functional modules using network topology and high-throughput data
With the advent of systems biology, biological knowledge is often represented today by networks. These include regulatory and metabolic networks, protein-protein interaction networks, and many others. At the s...
Citation: BMC Systems Biology 2007 1:8 -
METANNOGEN: compiling features of biochemical reactions needed for the reconstruction of metabolic networks
One central goal of computational systems biology is the mathematical modelling of complex metabolic reaction networks. The first and most time-consuming step in the development of such models consists in the ...
Citation: BMC Systems Biology 2007 1:5