Gene regulatory network models for plant development

ER Alvarez-Buylla, M Benítez, EB Dávila… - Current Opinion in Plant …, 2007 - Elsevier
Accumulated genetic data are stimulating the use of mathematical and computational tools
for studying the concerted action of genes during cell differentiation and morphogenetic …

Controllability of Boolean control networks via the Perron–Frobenius theory

D Laschov, M Margaliot - Automatica, 2012 - Elsevier
Boolean control networks (BCNs) are recently attracting considerable interest as
computational models for genetic and cellular networks. Addressing control-theoretic …

[HTML][HTML] Flower development

ER Alvarez-Buylla, M Benítez… - The Arabidopsis Book …, 2010 - ncbi.nlm.nih.gov
Flowers are the most complex structures of plants. Studies of Arabidopsis thaliana, which
has typical eudicot flowers, have been fundamental in advancing the structural and …

[图书][B] Phase transitions

RV Solé - 2011 - books.google.com
Phase transitions--changes between different states of organization in a complex system--
have long helped to explain physics concepts, such as why water freezes into a solid or …

The effective graph reveals redundancy, canalization, and control pathways in biochemical regulation and signaling

AJ Gates, R Brattig Correia, X Wang… - Proceedings of the …, 2021 - National Acad Sciences
The ability to map causal interactions underlying genetic control and cellular signaling has
led to increasingly accurate models of the complex biochemical networks that regulate …

Observability of Boolean networks: A graph-theoretic approach

D Laschov, M Margaliot, G Even - Automatica, 2013 - Elsevier
Boolean networks (BNs) are discrete-time dynamical systems with Boolean state-variables
and outputs. BNs are recently attracting considerable interest as computational models for …

Leveraging eco-evolutionary models for gene drive risk assessment

MA Combs, AJ Golnar, JM Overcash, AL Lloyd… - Trends in Genetics, 2023 - cell.com
Engineered gene drives create potential for both widespread benefits and irreversible harms
to ecosystems. CRISPR-based systems of allelic conversion have rapidly accelerated gene …

A SAT-based algorithm for finding attractors in synchronous Boolean networks

E Dubrova, M Teslenko - IEEE/ACM transactions on …, 2011 - ieeexplore.ieee.org
This paper addresses the problem of finding attractors in synchronous Boolean networks.
The existing Boolean decision diagram-based algorithms have limited capacity due to the …

Control of complex networks requires both structure and dynamics

AJ Gates, LM Rocha - Scientific reports, 2016 - nature.com
The study of network structure has uncovered signatures of the organization of complex
systems. However, there is also a need to understand how to control them; for example …

Minimum-time control of Boolean networks

D Laschov, M Margaliot - SIAM Journal on Control and Optimization, 2013 - SIAM
Boolean networks (BNs) are discrete-time dynamical systems with Boolean state variables.
BNs have recently been attracting considerable interest as computational models for …