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Model repository

Models

+ Miyoshi et al. 2007
+ Plyusnina et al. (in prep.)
+ Hertel et al. 2013
+ Jablonsky et al. 2014
+ Clark et al. 2014 (in progress)
+ Fridlyand et al. 1995
o Grimaud et al. 2014
o E-cyano team 2017, clock & C-N metabolism
o Müller et al. 2019

Matrix analysis of Fridlyand et al. 1995

This page displays elementary flux modes analysis for selected model.

You can view information about desired mode clicking on it. Information about corresponding reactions will unfold.

You can also download SBRML file clicking on link below.


Modes
List of Matrix:

+1# Irreversible
Reactions:
1 * Hydration of CO2 in carb, CO2_carb -> HCO3_m_carb
1 * Dehydration of HCO3- in carb, HCO3_m_carb -> CO2_carb
+2# Irreversible
Reactions:
1 * Diffusion of HCO3- c_e -> pps, HCO3_m_ocyt -> HCO3_m_pps
1 * HCO3- transport pps -> cyt_e, HCO3_m_pps -> HCO3_m_ocyt
+3# Irreversible
Reactions:
1 * HCO3- transport cyt_e -> pps, HCO3_m_ocyt -> HCO3_m_pps
1 * HCO3- transport pps -> cyt_e, HCO3_m_pps -> HCO3_m_ocyt
+4# Irreversible
Reactions:
1 * Hydration of CO2 in cyt_i, CO2_cyt_icyt -> HCO3_m_icyt
1 * Dehydration of HCO3- in cyt_i, HCO3_m_icyt -> CO2_cyt_icyt
+5# Irreversible
Reactions:
1 * Diffusion of HCO3- c_i -> carb, HCO3_m_icyt -> HCO3_m_carb
1 * Outward diffusion of CO2 carb -> c_i, CO2_carb -> CO2_cyt_icyt
1 * Hydration of CO2 in cyt_i, CO2_cyt_icyt -> HCO3_m_icyt
1 * Dehydration of HCO3- in carb, HCO3_m_carb -> CO2_carb
+6# Irreversible
Reactions:
1 * Conversion of CO2 to HCO3- cyt_e -> cyt_e, CO2_cyt_ocyt -> HCO3_m_ocyt
1 * Dehydration of HCO3- in cyt_e, HCO3_m_ocyt -> CO2_cyt_ocyt
+7# Irreversible
Reactions:
1 * Inward diffusion of accumulated HCO3- c_e -> c_i, HCO3_m_ocyt -> HCO3_m_icyt
1 * Outward diffusion of CO2 c_i -> c_e, CO2_cyt_icyt -> CO2_cyt_ocyt
1 * Conversion of CO2 to HCO3- cyt_e -> cyt_e, CO2_cyt_ocyt -> HCO3_m_ocyt
1 * Dehydration of HCO3- in cyt_i, HCO3_m_icyt -> CO2_cyt_icyt
+8# Irreversible
Reactions:
1 * Inward diffusion of accumulated HCO3- c_e -> c_i, HCO3_m_ocyt -> HCO3_m_icyt
1 * Outward diffusion of CO2 c_i -> c_e, CO2_cyt_icyt -> CO2_cyt_ocyt
1 * Diffusion of HCO3- c_i -> carb, HCO3_m_icyt -> HCO3_m_carb
1 * Outward diffusion of CO2 carb -> c_i, CO2_carb -> CO2_cyt_icyt
1 * Conversion of CO2 to HCO3- cyt_e -> cyt_e, CO2_cyt_ocyt -> HCO3_m_ocyt
1 * Dehydration of HCO3- in carb, HCO3_m_carb -> CO2_carb
+9# Irreversible
Reactions:
1 * Hydration of CO2 in cyt_e, CO2_cyt_ocyt -> HCO3_m_ocyt
1 * Dehydration of HCO3- in cyt_e, HCO3_m_ocyt -> CO2_cyt_ocyt
+10# Irreversible
Reactions:
1 * Inward diffusion of accumulated HCO3- c_e -> c_i, HCO3_m_ocyt -> HCO3_m_icyt
1 * Outward diffusion of CO2 c_i -> c_e, CO2_cyt_icyt -> CO2_cyt_ocyt
1 * Hydration of CO2 in cyt_e, CO2_cyt_ocyt -> HCO3_m_ocyt
1 * Dehydration of HCO3- in cyt_i, HCO3_m_icyt -> CO2_cyt_icyt
+11# Irreversible
Reactions:
1 * Inward diffusion of accumulated HCO3- c_e -> c_i, HCO3_m_ocyt -> HCO3_m_icyt
1 * Outward diffusion of CO2 c_i -> c_e, CO2_cyt_icyt -> CO2_cyt_ocyt
1 * Diffusion of HCO3- c_i -> carb, HCO3_m_icyt -> HCO3_m_carb
1 * Outward diffusion of CO2 carb -> c_i, CO2_carb -> CO2_cyt_icyt
1 * Hydration of CO2 in cyt_e, CO2_cyt_ocyt -> HCO3_m_ocyt
1 * Dehydration of HCO3- in carb, HCO3_m_carb -> CO2_carb

Analysis data:     SBRML
Please use the following reference to cite this web site:
M. Trojak, D. Safranek, J. Hrabec, J. Salagovic, F. Romanovska, J. Cerveny: E-Cyanobacterium.org: A Web-Based Platform for Systems Biology of Cyanobacteria. In: Computational Methods in Systems Biology, CMSB 2016, Vol. 9859 of LNCS, pp. 316-322. Springer, 2016. DOI