Oscillators for Modeling Biomass Growth Adaptation to Circadian Rhythms. - Jaromír Fiser; Pavel Zítek; Jan Cervený (UKSim, 2008)

E-photosynthesis: Web-based platform for modeling of complex photosynthetic processes. - David Safránek; Jan Cervený; Matej Klement; Jana Pospísilová; Lubos Brim; Dusan Lazar; Ladislav Nedbal (Biosyst., 2011)

A Comprehensive Web-based Platform For Domain-Specific Biological Models. - Matej Klement; David Safránek; T. Ded; Ales Pejznoch; Ladislav Nedbal; Ralf Steuer; Jan Cervený; Stefan Müller 009 (CS2Bio, 2013)

Biochemical Space: A Framework for Systemic Annotation of Biological Models. - Matej Klement; T. Ded; David Safránek; Jan Cervený; Stefan Müller 009; Ralf Steuer (CS2Bio, 2014)

E-Cyanobacterium.org: A Web-Based Platform for Systems Biology of Cyanobacteria. - Matej Troják; David Safránek; Jakub Hrabec; Jakub Salagovic; Frantiska Romanovská; Jan Cervený (CMSB, 2016)

Automatic Image-Based Method for Quantitative Analysis of Photosynthetic Cell Cultures. - Alzbeta Vlachynska; Jan Cervený; Vratislav Cmiel; Tomás Turecek (HAIS, 2016)

A model of optimal protein allocation during phototrophic growth. - Marjan Faizi; Tomás Zavrel; Cristina Loureiro; Jan Cervený; Ralf Steuer (Biosyst., 2018)

Reaction Networks, Oscillatory Motifs and Parameter Estimation in Biochemical Systems. - Igor Schreiber; Frantisek Muzika; Jan Cervený (HSB, 2019)

Executable Biochemical Space for Specification and Analysis of Biochemical Systems. - Matej Troják; David Safránek; Lubos Brim; Jakub Salagovic; Jan Cervený (SASB, 2020)

Shedding light on blue-green photosynthesis: A wavelength-dependent mathematical model of photosynthesis in Synechocystis sp. PCC 6803. - Tobias Pfennig; Elena Kullmann; Tomás Zavrel; Andreas Nakielski; Oliver Ebenhöh; Jan Cervený; Gábor Bernát; Anna Matuszynska (PLoS Comput. Biol., 2024)