Autocatalytic networks in biology: structural theory and algorithms

The Influence of Modularity, Seeding, and Product Inhibition on Peptide Autocatalytic Network Dynamics

(2018) Wim Hordijk et al.   CHEMPHYSCHEM

Improved kinetic model of Escherichia coli central carbon metabolism in batch and continuous cultures

(2018) Hiroyuki Kurata et al.   JOURNAL OF BIOSCIENCE AND BIOENGINEERING

Niche emergence as an autocatalytic process in the evolution of ecosystems

(2018) Roberto Cazzolla Gatti et al.   JOURNAL OF THEORETICAL BIOLOGY

Autocatalytic sets and chemical organizations: modeling self-sustaining reaction networks at the origin of life

(2018) Wim Hordijk et al.   NEW JOURNAL OF PHYSICS

iPath3.0: interactive pathways explorer v3

(2018) Youssef Darzi et al.   NUCLEIC ACIDS RESEARCH

Autocatalytic sets in polymer networks with variable catalysis distributions

(2016) Wim Hordijk et al.   JOURNAL OF MATHEMATICAL CHEMISTRY

Prebiotic network evolution: six key parameters

(2015) Philippe Nghe et al.   Molecular BioSystems

Personalized Whole-Cell Kinetic Models of Metabolism for Discovery in Genomics and Pharmacodynamics

(2015) Aarash Bordbar et al.   Cell Systems

A kinetic model of Escherichia coli core metabolism satisfying multiple sets of mutant flux data

(2014) Ali Khodayari et al.   METABOLIC ENGINEERING

Minimal autocatalytic networks

(2013) Mike Steel et al.   JOURNAL OF THEORETICAL BIOLOGY

The Structure of Autocatalytic Sets: Evolvability, Enablement, and Emergence

(2012) Wim Hordijk et al.   ACTA BIOTHEORETICA

Evolution before genes

(2012) Vera Vasas et al.   Biology Direct

Spontaneous network formation among cooperative RNA replicators

(2012) Nilesh Vaidya et al.   NATURE

Autocatalytic Sets and the Origin of Life

(2010) Wim Hordijk et al.   Entropy

Formulating genome-scale kinetic models in the post-genome era

(2008) Neema Jamshidi et al.   Molecular Systems Biology