Laasmaa, M., Lu, P., Veletić, M., Louch, W. E., Bergsland, J., Balasingham, I., & Vendelin, M. (2019). Energy-efficiency of Cardiomyocyte Stimulation with Rectangular Pulses. Scientific Reports, 9(1), 1–9.
Karro, N., Laasmaa, M., Vendelin, M., & Birkedal, R. (2019). Respiration of permeabilized cardiomyocytes from mice: no sex differences, but substrate-dependent changes in the apparent ADP-affinity. Scientific Reports, 9(1), 1–11.
Laasmaa, M., Karro, N., Birkedal, R., & Vendelin, M. (2019). IOCBIO Sparks detection and analysis software. PeerJ, 7, e6652.
Laasmaa, M., Birkedal, R., & Vendelin, M. (2016). Revealing calcium fluxes by analyzing inhibition dynamics in action potential clamp. Journal of Molecular and Cellular Cardiology, 100, 93–108.
Karro, N., Sepp, M., Jugai, S., Laasmaa, M., Vendelin, M., & Birkedal, R. (2016). Metabolic compartmentation in rainbow trout cardiomyocytes: coupling of hexokinase but not creatine kinase to mitochondrial respiration. Journal of Comparative Physiology. B, Biochemical, Systemic, and Environmental Physiology.
Simson, P., Jepihhina, N., Laasmaa, M., Peterson, P., Birkedal, R., & Vendelin, M. (2016). Restricted ADP movement in cardiomyocytes: Cytosolic diffusion obstacles are complemented with a small number of open mitochondrial voltage-dependent anion channels. Journal of Molecular and Cellular Cardiology, 97, 197–203.
Kalda, M., Peterson, P., & Vendelin, M. (2015). Cross-Bridge Group Ensembles Describing Cooperativity in Thermodynamically Consistent Way. PLoS ONE, 10(9), e0137438.
Sepp, M., Sokolova, N., Jugai, S., Mandel, M., Peterson, P., & Vendelin, M. (2014). Tight Coupling of Na+/K+-ATPase with Glycolysis Demonstrated in Permeabilized Rat Cardiomyocytes. PLoS ONE, 9(6), e99413.
Birkedal, R., Laasmaa, M., & Vendelin, M. (2014). The location of energetic compartments affects energetic communication in cardiomyocytes. Frontiers in Physiology, 5, 376.
Sokolova, N., Pan, S., Provazza, S., Beutner, G., Vendelin, M., Birkedal, R., & Sheu, S.-S. (2013). ADP Protects Cardiac Mitochondria under Severe Oxidative Stress. PLoS ONE, 8(12), e83214.
Branovets, J., Sepp, M., Kotlyarova, S., Jepihhina, N., Sokolova, N., Aksentijevic, D., … Birkedal, R. (2013). Unchanged mitochondrial organization and compartmentation of high-energy phosphates in creatine deficient GAMT-/- mouse heart. American Journal of Physiology - Heart and Circulatory Physiology.
Peterson, P., Kalda, M., & Vendelin, M. (2013). Real-time determination of sarcomere length of a single cardiomyocyte during contraction. American Journal of Physiology - Cell Physiology, 304(6), C519–C531.
Schryer, D. W., Peterson, P., Illaste, A., & Vendelin, M. (2012). Sensitivity Analysis of Flux Determination in Heart by H218O -provided Labeling Using a Dynamic Isotopologue Model of Energy Transfer Pathways. PLoS Comput Biol, 8(12), e1002795.
Karo, J., Peterson, P., & Vendelin, M. (2012). Molecular Dynamics Simulations of Creatine Kinase and Adenine Nucleotide Translocase in Mitochondrial Membrane Patch. Journal of Biological Chemistry, 287(10), 7467–7476.
Illaste, A., Laasmaa, M., Peterson, P., & Vendelin, M. (2012). Analysis of Molecular Movement Reveals Latticelike Obstructions to Diffusion in Heart Muscle Cells. Biophysical Journal, 102(4), 739–748.
Jepihhina, N., Beraud, N., Sepp, M., Birkedal, R., & Vendelin, M. (2011). Permeabilized rat cardiomyocyte response demonstrates intracellular origin of diffusion obstacles. Biophysical Journal, 101(9), 2112–2121.
Laasmaa, M., Vendelin, M., & Peterson, P. (2011). Application of regularized Richardson-Lucy algorithm for deconvolution of confocal microscopy images. Journal of Microscopy, 243(2), 124–140.
Schryer, D., Vendelin, M., & Peterson, P. (2011). Symbolic flux analysis for genome-scale metabolic networks. BMC Systems Biology, 5(1), 81.
Ramay, H. R., Liu, O. Z., & Sobie, E. A. (2011). Recovery of cardiac calcium release is controlled by sarcoplasmic reticulum refilling and ryanodine receptor sensitivity. Cardiovascular Research, 91(4), 598–605.
Vendelin, M., Mateo, P., Soboll, S., Gillet, B., Mazet, J.-L., & Hoerter, J. A. (2010). Response to Aliev et al.: PCr and ATP Export Both Participate in Energy Transfer from Mitochondria in Normoxic Heart. Journal of Biological Chemistry, 285(52), le22.
Illaste, A., Kalda, M., Schryer, D. W., & Sepp, M. (2010). Life of mice – development of cardiac energetics. The Journal of Physiology, 588(23), 4617–4619.
Vendelin, M., Hoerter, J. A., Mateo, P., Soboll, S., Gillet, B., & Mazet, J.-L. (2010). Modulation of Energy Transfer Pathways between Mitochondria and Myofibrils by Changes in Performance of Perfused Heart. Journal of Biological Chemistry, 285(48), 37240–37250.
Sepp, M., Vendelin, M., Vija, H., & Birkedal, R. (2010). ADP Compartmentation Analysis Reveals Coupling between Pyruvate Kinase and ATPases in Heart Muscle. Biophysical Journal, 98, 2785–2793.
Ramay, H. R., & Vendelin, M. (2009). Diffusion Restrictions Surrounding Mitochondria: A Mathematical Model of Heart Muscle Fibers. Biophysical Journal, 97(2), 443–452.
Schryer, D. W., Peterson, P., Paalme, T., & Vendelin, M. (2009). Bidirectionality and Compartmentation of Metabolic Fluxes Are Revealed in the Dynamics of Isotopomer Networks. International Journal of Molecular Sciences, 10, 1697–1718.
Beraud, N., Pelloux, S., Usson, Y., Kuznetsov, A. V., Ronot, X., Tourneur, Y., & Saks, V. (2009). Mitochondrial dynamics in heart cells: Very low amplitude high frequency fluctuations in adult cardiomyocytes and flow motion in non beating Hl-1 cells. Journal of Bioenergetics and Biomembranes, 41(2), 195–214.
Sokolova, N., Vendelin, M., & Birkedal, R. (2009). Intracellular diffusion restrictions in isolated cardiomyocytes from rainbow trout. BMC Cell Biology, 10(1), 90.
Peterson, P. (2009). {F2PY}: a tool for connecting {Fortran} and {Python} programs. International Journal of Computational Science and Engineering, 4(4), 296–305.
Birkedal, R., Christopher, J., Thistlethwaite, A., & Shiels, H. (2009). Temperature acclimation has no effect on ryanodine receptor expression or subcellular localization in rainbow trout heart. Journal of Comparative Physiology B: Biochemical, Systemic, and Environmental Physiology, 179(8), 961–969.
Monge, C., Beraud, N., Kuznetsov, A. V., Rostovtseva, T., Sackett, D., Schlattner, U., … Saks, V. A. (2008). Regulation of respiration in brain mitochondria and synaptosomes: restrictions of ADP diffusion in situ, roles of tubulin, and mitochondrial creatine kinase. Molecular and Cellular Biochemistry, 318(1–2), 147–165.
Vendelin, M., & Birkedal, R. (2008). Anisotropic Diffusion of Fluorescently Labeled ATP in Rat Cardiomyocytes Determined by Raster Image Correlation Spectroscopy. American Journal of Physiology - Cell Physiology, 295(5), C1302–C1315.
Saks, V., Kaambre, T., Guzun, R., Anmann, T., Sikk, P., Schlattner, U., … Vendelin, M. (2007). The creatine kinase phosphotransfer network: thermodynamic and kinetic considerations, the impact of the mitochondrial outer membrane and modelling approaches. Sub-Cellular Biochemistry, 46, 27–65.
Beard, D. A., & Vendelin, M. (2006). Systems Biology of the Mitochondrion. American Journal of Physiology - Cell Physiology, 291(6), C1101–C1103.
Birkedal, R., Shiels, H. A., & Vendelin, M. (2006). Three-Dimensional Mitochondrial Arrangement in Ventricular Myocytes: From Chaos to Order. American Journal of Physiology - Cell Physiology, 291(6), C1148–C1158.
Saks, V., Dzeja, P., Schlattner, U., Vendelin, M., Terzic, A., & Wallimann, T. (2006). Cardiac System Bioenergetics: Metabolic Basis of the Frank-Starling Law. The Journal of Physiology, 571(2), 253–273.
Guerrero, K., Wuyam, B., Mezin, P., Vivodtzev, I., Vendelin, M., Borel, J.-C., … Pison, C. (2005). Functional Coupling of Adenine Nucleotide Translocase and Mitochondrial Creatine Kinase Is Enhanced After Exercise Training in Lung Transplant Skeletal Muscle. American Journal of Physiology - Regulatory, Integrative and Comparative Physiology, 289(4), R1144–R1154.
Anmann, T., Eimre, M., Kuznetsov, A. V., Andrienko, T., Kaambre, T., Sikk, P., … Saks, V. A. (2005). Calcium‐induced contraction of sarcomeres changes the regulation of mitochondrial respiration in permeabilized cardiac cells. FEBS Journal, 272(12), 3145–3161.
Vendelin, M., Béraud, N., Guerrero, K., Andrienko, T., Kuznetsov, A. V., Olivares, J., … Saks, V. A. (2005). Mitochondrial Regular Arrangement in Muscle Cells: A “crystal-Like” Pattern. American Journal of Physiology - Cell Physiology, 288(3), C757–C767.
Vendelin, M., Lemba, M., & Saks, V. A. (2004). Analysis of Functional Coupling: Mitochondrial Creatine Kinase and Adenine Nucleotide Translocase. Biophysical Journal, 87(1), 696–713.
Vendelin, M., Eimre, M., Seppet, E., Peet, N., Andrienko, T., Lemba, M., … Saks, V. A. (2004). Intracellular diffusion of adenosine phosphates is locally restricted in cardiac muscle. Molecular and Cellular Biochemistry, 256/257(1/2), 229–241.
Saks, V. A., Kuznetsov, A. V., Vendelin, M., Guerrero, K., Kay, L., & Seppet, E. K. (2004). Functional coupling as a basic mechanism of feedback regulation of cardiac energy metabolism. Molecular and Cellular Biochemistry, 256257(1), 185–199.
Andrienko, T., Kuznetsov, A. V., Kaambre, T., Usson, Y., Orosco, A., Appaix, F., … Saks, V. A. (2003). Metabolic Consequences of Functional Complexes of Mitochondria, Myofibrils and Sarcoplasmic Reticulum in Muscle Cells. Journal of Experimental Biology, 206(12), 2059–2072.
Saks, V., Kuznetsov, A., Andrienko, T., Usson, Y., Appaix, F., Guerrero, K., … Vendelin, M. (2003). Heterogeneity of ADP Diffusion and Regulation of Respiration in Cardiac Cells. Biophysical Journal, 84(5), 3436–3456.
Vendelin, M., Bovendeerd, P. H. M., Engelbrecht, J., & Arts, T. (2002). Optimizing Ventricular Fibers: Uniform Strain or Stress, but Not ATP Consumption, Leads to High Efficiency. American Journal of Physiology - Heart and Circulatory Physiology, 283(3), H1072–H1081.
Vendelin, M., Kongas, O., & Saks, V. (2000). Regulation of mitochondrial respiration in heart cells analyzed by reaction-diffusion model of energy transfer. American Journal of Physiology - Cell Physiology, 278(4), C747–C764. Retrieved from
Saks, V. A., Kongas, O., Vendelin, M., & Kay, L. (2000). Role of the creatine/phosphocreatine system in the regulation of mitochondrial respiration. Acta Physiologica Scandinavica, 168(4), 635–641.
Vendelin, M., Bovendeerd, P. H. M., Arts, T., Engelbrecht, J., & van Campen, D. H. (2000). Cardiac Mechanoenergetics Replicated by Cross-Bridge Model. Annals of Biomedical Engineering, 28(6), 629–640.
Engelbrecht, J., Vendelin, M., & Maugin, G. A. (2000). Hierarchical internal variables reflecting microstructural properties: Application to cardiac muscle contraction. Journal of Non-Equilibrium Thermodynamics, 25(2), 119–130.

Chapters in books

Saks, V. A., Vendelin, M., Aliev, M. K., Kekelidze, T., & Engelbrecht, J. (2007). 8.1 Mechanisms and Modeling of Energy Transfer Between Intracellular Compartments. In A. Lajtha, G. E. Gibson, & G. A. Dienel (Eds.), Handbook of Neurochemistry and Molecular Neurobiology (pp. 815–860). Springer US. Retrieved from
Saks, V., Dzeja, P. P., Guzun, R., Aliev, M. K., Vendelin, M., Terzic, A., & Wallimann, T. (2007). System Analysis of Cardiac Energetics–Excitation–Contraction Coupling: Integration of Mitochondrial Respiration, Phosphotransfer Pathways, Metabolic Pacing, and Substrate Supply in the Heart. In V. Saks (Ed.), Molecular System Bioenergetics (pp. 367–405). Wiley-VCH Verlag GmbH & Co. KGaA. Retrieved from
Engelbrecht, J., & Vendelin, M. (2006). Mathematical Modelling of Cardiac Mechanoenergetics. In P. G. A. Holzapfel & P. R. W. Ogden (Eds.), Mechanics of Biological Tissue (pp. 369–378). Springer Berlin Heidelberg. Retrieved from
Vendelin, M., Bovendeerd, P. H. M., Saks, V., Engelbrecht, J., & Arts, T. (2003). Simulating Cardiac Mechanoenergetics in the Left Ventricle. In I. E. Magnin, J. Montagnat, P. Clarysse, J. Nenonen, & T. Katila (Eds.), Functional Imaging and Modeling of the Heart (pp. 72–80). Springer Berlin Heidelberg. Retrieved from