Recent development and biomedical applications of probabilistic Boolean networks

Bridging the layers: towards integration of signal transduction, regulation and metabolism into mathematical models

(2013) Emanuel Gonçalves et al.   Molecular BioSystems

DNA Sequencing

(2012) Frederick E. Dewey et al.   CIRCULATION

Probabilistic Logic Methods and Some Applications to Biology and Medicine

(2012) Nikita A. Sakhanenko et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Hub-Centered Gene Network Reconstruction Using Automatic Relevance Determination

(2012) Matthias Böck et al.   PLoS One

Ergodic Sets as Cell Phenotype of Budding Yeast Cell Cycle

(2012) Robert G. Todd et al.   PLoS One

Inferring Boolean network structure via correlation

(2011) Markus Maucher et al.   BIOINFORMATICS

ADAM: Analysis of Discrete Models of Biological Systems Using Computer Algebra

(2011) Franziska Hinkelmann et al.   BMC BIOINFORMATICS

Metabolomic correlation-network modules in Arabidopsis based on a graph-clustering approach

(2011) Atsushi Fukushima et al.   BMC Systems Biology

Enhancing the role of veterinary vaccines reducing zoonotic diseases of humans: Linking systems biology with vaccine development

(2011) L. Garry Adams et al.   VACCINE

A CoD-based reduction algorithm for designing stationary control policies on Boolean networks

(2010) Noushin Ghaffari et al.   BIOINFORMATICS

State reduction for network intervention in probabilistic Boolean networks

(2010) Xiaoning Qian et al.   BIOINFORMATICS

Diseases as network perturbations

(2010) Antonio del Sol et al.   CURRENT OPINION IN BIOTECHNOLOGY

Optimal control for probabilistic Boolean networks

(2010) Q. Liu et al.   IET Systems Biology

Systems analysis of EGF receptor signaling dynamics with microwestern arrays

(2010) Mark F Ciaccio et al.   NATURE METHODS

Probabilistic integrative modeling of genome-scale metabolic and regulatory networks inEscherichia coliandMycobacterium tuberculosis

(2010) Sriram Chandrasekaran et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Reconstructing signaling pathways from RNAi data using probabilistic Boolean threshold networks

(2009) Lars Kaderali et al.   BIOINFORMATICS

Generating probabilistic Boolean networks from a prescribed transition probability matrix

(2009) W.-K. Ching et al.   IET Systems Biology

Distribution and enumeration of attractors in probabilistic Boolean networks

(2009) M. Hayashida et al.   IET Systems Biology

Inference of Boolean networks under constraint on bidirectional gene relationships

(2009) G. Vahedi et al.   IET Systems Biology

Optimal control policy for probabilistic Boolean networks with hard constraints

(2009) W.-K. Ching et al.   IET Systems Biology

On the long-run sensitivity of probabilistic Boolean networks

(2009) Xiaoning Qian et al.   JOURNAL OF THEORETICAL BIOLOGY

ON/OFF and Beyond - A Boolean Model of Apoptosis

(2009) Rebekka Schlatter et al.   PLoS Computational Biology

Inferring causal relationships among different histone modifications and gene expression

(2008) H. Yu et al.   GENOME RESEARCH