Statistical analysis of fluorescence intensity transients with Bayesian methods

Posted on May 2, 2025May 2, 2025 by admin

Hamed Karimi, Martin Laasmaa, Margus Pihlak, Marko Vendelin Science Advances 2025 Apr 18;11(16):eads4609 PMID: 40249821 DOI: 10.1126/sciadv.ads4609 Abstract Molecular movement and interactions at the single-molecule level, particularly in live cells, are often studied using fluorescence correlation spectroscopy (FCS). While powerful, FCS has notable drawbacks: It requires high laser intensities and long acquisition times, increasing phototoxicity, and often relies on proble...

Higher AMPK activation in mouse oxidative compared with glycolytic muscle does not correlate with LKB1 or CaMKKβ expression

Posted on April 20, 2025April 28, 2025 by admin

Romain Bernasconi, Kärol Soodla, Alex Sirp, Kairit Zovo, Maria Kuhtinskaja, Tiit Lukk, Marko Vendelin, Rikke Birkedal Am J Physiol Endocrinol Metab. 2025 Jan 1;328(1):E21-E33 PMID: 39607028 DOI: 10.1152/ajpendo.00261.2024 Noteworthy It is important to understand how AMP-activated kinase, AMPK, is regulated, as it is a potential therapeutic target for several diseases. AMPK is activated by liver kinase B1, LKB1, and calcium/calmodulin-dependent kinase kinase 2, CaMKKβ. In cultur...

Compartmentalization in cardiomyocytes modulates creatine kinase and adenylate kinase activities

Posted on November 20, 2024November 20, 2024 by admin

Rikke Birkedal, Jelena Branovets, Marko Vendelin FEBS Letters 2024 Nov;598(21):2623-2640. PMID: 39112921 DOI: 10.1002/1873-3468.14994 Abstract Intracellular molecules are transported by motor proteins or move by diffusion resulting from random molecular motion. Cardiomyocytes are packed with structures that are crucial for function, but also confine the diffusional spaces, providing cells with a means to control diffusion. They form compartments in which local concentrations ar...

Published Protocol: Simple Analysis of Gel Images With IOCBIO Gel Software

Posted on September 4, 2024September 4, 2024 by admin

Lucia Jaska, Rikke Birkedal, Martin Laasmaa, Marko Vendelin Bio-protocol, 2024 Aug 20; 14(16):e5053 PMID: 39210956 DOI: 10.21769/BioProtoc.5053 Abstract Gel image analyses are often difficult to reproduce, as the most commonly used software, the ImageJ Gels plugin, does not automatically record any steps in the analysis process. This protocol provides detailed steps for image analysis using IOCBIO Gel software with western blot as an example; however, the protocol is applic...

Simple analysis of gel images with IOCBIO Gel

Posted on October 24, 2023October 24, 2023 by admin

Jaak Kütt, Georg Margus, Lauri Kask, Triinu Rätsepso, Kärol Soodla, Romain Bernasconi, Rikke Birkedal, Priit Järv, Martin Laasmaa, Marko Vendelin BMC Biology 2023 Oct 20;21(1):225 PMID: PMC10589977 DOI: 10.1186/s12915-023-01734-8 Abstract Background: Current solutions for the analysis of Western Blot images lack either transparency and reproducibility or can be tedious to use if one has to ensure the reproducibility of the analysis. Results: Here, we present an open-sou...

Cardiomyocytes from female compared to male mice have larger ryanodine receptor clusters and higher calcium spark frequency

Posted on September 20, 2023June 17, 2024 by admin

Martin Laasmaa, Jelena Branovets, Jekaterina Stolova, Xin Shen, Triinu Rätsepso, Mihkel Jaan Balodis, Cärolin Grahv, Eliise Hendrikson, William Edward Louch, Rikke Birkedal, Marko Vendelin The Journal of Physiology, 601(18), 4033–4052 PMID: 37561554 DOI: 10.1113/JP284515 Abstract Sex differences in cardiac physiology are receiving increased attention as it has become clear that men and women have different aetiologies of cardiac disease and require different treatments. The...

Looking for PhD student: mathematical modeling

Posted on December 20, 2022 by admin

We have opened competition for a PhD student position: Mathematical modeling of energy transfer and mechanics in theheart In heart muscle cells, energy used by most of the processes in the muscle cells is supplied in the form ofATP by mitochondria. Within this project, you would be designing state-of-the-art mathematical models to unravel mechanisms regulating ATP production in mitochondria, selection of energy transfer pathways between mitochondria and ATP consumers, as well as working o...

Ontogeny of cardiomyocytes: ultrastructure optimization to meet the demand for tight communication in excitation-contraction coupling and energy transfer

Posted on December 20, 2022December 20, 2022 by admin

Rikke Birkedal, Martin Laasmaa, Jelena Branovets, Marko Vendelin Philos Trans R Soc Lond B Biol Sci. 2022 Nov 21;377(1864):20210321. PMID: 36189816 DOI: 10.1098/rstb.2021.0321 Abstract The ontogeny of the heart describes its development from the fetal to the adult stage. In newborn mammals, blood pressure and thus cardiac performance are relatively low. The cardiomyocytes are thin, and with a central core of mitochondria surrounded by a ring of myofilaments, while the sarco...

Physiology in Focus 2023

Posted on November 20, 2022November 1, 2024 by admin

We are participating in organizing Physiology in Focus 2023, which will be held in Tallinn, Estonia, September 14-16, 2023. Physiology in Focus 2023 is the first joint physiology meeting of the Scandinavian Physiological Society (SPS), the Federation of European Physiological Societies (FEPS), and the Baltic Physiological Societies. See more at the archived official website of the conference https://sps-feps-2023.publicon.ee/

Thesis defense: Jelena Branovets

Posted on September 20, 2022September 20, 2022 by admin

Jelena Branovets is defending her thesis on Energetics and Calcium Handling in Hearts from Creatine-Deficient Mice. Defense is on 29 September 2022 at 10:00 at the Department of chemistry and biotechnology, room SCI109.