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  • 1.
    Andronico, Luca
    et al.
    Karolinska Inst, Solna, Sweden..
    Jang, Yidan
    EMBL Heidelberg, Heidelberg, Germany..
    Iskrak, Sofia
    Karolinska Inst, Solna, Sweden..
    Ragaller, Franziska
    Karolinska Inst, Solna, Sweden..
    Sandoz, Patrick
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics.
    Buggert, Marcus
    Karolinska Inst, Solna, Sweden..
    Brodin, Petter
    Karolinska Inst, Solna, Sweden..
    Sezgin, Erdinc
    Karolinska Inst, Solna, Sweden..
    Cell biophysical properties unlock a new dimension in defining functional state of cells in health and diseases.2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S169-S169Article in journal (Other academic)
  • 2.
    Bagheri, Niusha
    et al.
    KTH, School of Engineering Sciences (SCI), Applied Physics, Quantum and Biophotonics.
    Chen, Hongjian
    KTH, School of Engineering Sciences (SCI), Applied Physics, Quantum and Biophotonics.
    Piguet, Joachim
    KTH, School of Engineering Sciences (SCI), Applied Physics, Quantum and Biophotonics.
    Rabasovic, Mihailo
    Univ Belgrade, Photon Ctr, Inst Phys, Belgrade, Serbia..
    Widengren, Jerker
    KTH, School of Engineering Sciences (SCI), Applied Physics, Quantum and Biophotonics.
    Non-fluorescent transient states of tyrosine: a basis for label-free protein conformation and interaction studies2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S170-S170Article in journal (Other academic)
  • 3.
    Bergh, Cathrine
    et al.
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics. KTH, Centres, Science for Life Laboratory, SciLifeLab.
    Rovsnik, Urska
    Sci Life Lab, Solna, Sweden.;Stockholm Univ, Stockholm, Sweden..
    Howard, Rebecca
    Sci Life Lab, Solna, Sweden.;Stockholm Univ, Stockholm, Sweden..
    Lindahl, Erik
    KTH, Centres, Science for Life Laboratory, SciLifeLab. KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics.
    Integrating simulations and cryo-EM reveal lipid binding sites in a ligand-gated ion channel2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S118-S118Article in journal (Other academic)
  • 4.
    Carrante, Noemi Ferrante
    et al.
    Lund Univ, Div Phys Chem, Dept Chem, Lund, Sweden..
    Dubackic, Marija
    Lund Univ, Div Phys Chem, Dept Chem, Lund, Sweden..
    Makasewicz, Katarzyna
    Lund Univ, Div Phys Chem, Dept Chem, Lund, Sweden..
    Wennmalm, Stefan
    KTH, Centres, Science for Life Laboratory, SciLifeLab. KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics.
    Liu, Xiaoyan
    Lund Univ, Div Phys Chem, Dept Chem, Lund, Sweden..
    Hermodsson, Tova
    Lund Univ, Lund, Sweden..
    Linse, Sara
    Lund Univ, Dept Chem, Div Biochem & Struct Biol, Lund, Sweden..
    Sparr, Emma
    Lund Univ, Div Phys Chem, Dept Chem, Lund, Sweden..
    alpha-Synuclein Cooperativity in Lipid Membranes Binding2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S130-S130Article in journal (Other academic)
  • 5.
    Chen, Yue
    et al.
    KTH, Centres, Science for Life Laboratory, SciLifeLab. KTH, School of Engineering Sciences (SCI), Applied Physics.
    Carlsson, Jens
    Sci Life Lab, Solna, Sweden.;Uppsala Univ, Uppsala, Sweden..
    Delemotte, Lucie
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics. KTH, Centres, Science for Life Laboratory, SciLifeLab.
    Mechanism of Ligand-dependent G- protein-coupled Receptor Activation Reveled by Free-energy Landscapes2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S123-S123Article in journal (Other academic)
  • 6.
    Chmelova, Barbora
    et al.
    Czech Acad Sci, J Heyrovsky Inst Phys Chem, Dolejskova 3, Prague 18223, Czech Republic.;Charles Univ Prague, Fac Math & Phys, Ke Karlovu 5, Prague 12116, Czech Republic..
    Koukalova, Alena
    Czech Acad Sci, Inst Organ Chem & Biochem, Flemingovo namesti 542-2, Prague 16000 6, Czech Republic..
    Hof, Martin
    Czech Acad Sci, J Heyrovsky Inst Phys Chem, Dolejskova 3, Prague 18223, Czech Republic..
    Sezgin, Erdinc
    Karolinska Inst, Dept Womens & Childrens Hlth, S-17177 Stockholm, Sweden..
    Sachl, Radek
    Czech Acad Sci, J Heyrovsky Inst Phys Chem, Dolejskova 3, Prague 18223, Czech Republic..
    Blom, Hans
    KTH, Centres, Science for Life Laboratory, SciLifeLab. KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics.
    Interpretation of STED-FCS diffusion law plots for nanoscopically heterogeneous membranes2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S123-S123Article in journal (Other academic)
  • 7.
    Esmaeeli, Hanie
    et al.
    KTH, School of Engineering Sciences (SCI), Applied Physics, Quantum and Biophotonics.
    Venugopal Srambickal, Chinmaya
    KTH, School of Engineering Sciences (SCI), Applied Physics, Quantum and Biophotonics.
    Piguet, Joachim
    KTH, School of Engineering Sciences (SCI), Applied Physics, Quantum and Biophotonics.
    Bates, Mark
    Inst Nanophoton Gottingen, Gottingen, Germany..
    Siegmund, Rene
    Inst Nanophoton Gottingen, Gottingen, Germany..
    Reinkensmeier, Lenny
    Inst Nanophoton Gottingen, Gottingen, Germany..
    Egner, Alexander
    Inst Nanophoton Gottingen, Gottingen, Germany..
    Widengren, Jerker
    KTH, School of Engineering Sciences (SCI), Applied Physics, Quantum and Biophotonics.
    Transient state characterization of cyanine fluorophores to take next generation super-resolution imaging into the near-IR.2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S179-S179Article in journal (Other academic)
  • 8.
    Fan, Chen
    et al.
    Stockholm Univ, Stockholm, Sweden..
    Legesse, Dagimhiwat
    UT Southwestern Med Ctr, Dallas, TX USA..
    Zhuang, Yuxuan
    Stockholm Univ, Stockholm, Sweden..
    Noviello, Colleen
    UT Southwestern Med Ctr, Dallas, TX USA..
    Hibbs, Ryan
    UT Southwestern Med Ctr, Dallas, TX USA..
    Howard, Reba
    Stockholm Univ, Stockholm, Sweden..
    Lindahl, Erik
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics. Stockholm Univ, Stockholm, Sweden..
    Structural insights into opposing actions of neurosteroids on GABAA receptors2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S129-S129Article in journal (Other academic)
  • 9.
    Fleetwood, Oliver
    et al.
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics. KTH, Centres, Science for Life Laboratory, SciLifeLab.
    Chen, Yue
    KTH Royal Inst Technol, Dept Appl Phys, Sci Life Lab, Stockholm, Sweden..
    Perez-Conesa, Sergio
    KTH, Centres, Science for Life Laboratory, SciLifeLab.
    Delemotte, Lucie
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics. KTH, Centres, Science for Life Laboratory, SciLifeLab.
    Elucidation of G-protein-coupled receptor activation via data-driven modeling2021In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 50, no SUPPL 1, p. 74-74Article in journal (Other academic)
  • 10.
    Fornasier, Marco
    et al.
    Lund Univ, Div Phys Chem, Dept Chem, SE-22000 Lund, Sweden..
    Wennmalm, Stefan
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics. KTH, Centres, Science for Life Laboratory, SciLifeLab.
    Andersson, Alexandra
    Lund Univ, Div Phys Chem, Dept Chem, SE-22000 Lund, Sweden..
    Sparr, Emma
    Lund Univ, Div Phys Chem, Dept Chem, SE-22000 Lund, Sweden..
    Jonsson, Peter
    Lund Univ, Div Phys Chem, Dept Chem, SE-22000 Lund, Sweden..
    Effect of the negative lipid fraction on alpha-synuclein cooperativity and binding2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S81-S81Article in journal (Other academic)
  • 11.
    Haloi, Nandan
    et al.
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics. KTH Royal Inst Technol, Stockholm, Sweden..
    Howard, Rebecca
    Stockholm Univ, Stockholm, Sweden..
    Lindahl, Erik
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics. Stockholm Univ, Stockholm, Sweden..
    Structural and energetic characterizations of the conformational landscapes in ligand gated ion channels using adaptive sampling and Markov state modeling2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S60-S60Article in journal (Other academic)
  • 12.
    Herland, Anna
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Protein Science, Nano Biotechnology. KTH, Centres, Science for Life Laboratory, SciLifeLab.
    Invited speaker Combining Stem Cell and Device Engineering for In vitro Models of Human Physiology2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S29-S29Article in journal (Other academic)
  • 13.
    Jalalypour, Farzaneh
    et al.
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics. KTH, Centres, Science for Life Laboratory, SciLifeLab.
    Howard, Rebecca. J.
    Stockholm Univ, Sci Life Lab, Dept Biochem & Biophys, Stockholm, Sweden..
    Lindahl, Erik
    KTH, Centres, Science for Life Laboratory, SciLifeLab. KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics. Stockholm Univ, Sci Life Lab, Dept Biochem & Biophys, Stockholm, Sweden..
    An Allosteric Cholesterol Site in Glycine Receptors Defined Through Molecular Simulations2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S136-S136Article in journal (Other academic)
  • 14.
    Karlsson, Emelia
    et al.
    Stockholm Univ, Dept Biochem & Biophys, Solna, Sweden..
    Anden, Olivia
    Stockholm Univ, Dept Biochem & Biophys, Solna, Sweden..
    Fan, Chen
    Stockholm Univ, Dept Biochem & Biophys, Solna, Sweden..
    Zhuang, Yuxuan
    Stockholm Univ, Dept Biochem & Biophys, Solna, Sweden..
    Delarue, Marc
    Inst Pasteur, Unite Dynam Struct Macromol, Paris, France..
    Howard, Rebecca
    Stockholm Univ, Dept Biochem & Biophys, Solna, Sweden..
    Lindahl, Erik
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics. Stockholm Univ, Dept Biochem & Biophys, Solna, Sweden..
    Modulation of a ligand-gated ion channel by an amphetamine derivative2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S137-S137Article in journal (Other academic)
  • 15.
    Kolmodin Dahlberg, Simon
    et al.
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Gene Technology.
    Hoffecker, Ian T.
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Gene Technology.
    Developing a method for protein-based DNA microscopy2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S190-S190Article in journal (Other academic)
  • 16.
    Lendel, Christofer
    et al.
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Chemistry, Applied Physical Chemistry.
    Hedenqvist, Mikael S.
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Fibre- and Polymer Technology, Polymeric Materials.
    Langton, Maud
    Swedish Univ Agr Sci, Dept Mol Sci, Uppsala, Sweden..
    Lundell, Fredrik
    KTH, School of Engineering Sciences (SCI), Engineering Mechanics.
    Design of hierarchical protein materials for a sustainable society2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S48-S48Article in journal (Other academic)
  • 17.
    Lindahl, Viveca
    et al.
    KTH, School of Engineering Sciences (SCI), Theoretical Physics, Theoretical & Computational Biophysics.
    Lidmar, Jack
    KTH, School of Engineering Sciences (SCI), Applied Physics.
    Hess, Berk
    KTH, School of Engineering Sciences (SCI), Theoretical Physics, Theoretical & Computational Biophysics.
    Sampling rare biomolecular events with adaptive pulling simulations2015In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 44, p. S144-S144Article in journal (Other academic)
  • 18.
    Majdolhosseini, Maryam
    et al.
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Biomedical Engineering and Health Systems, Neuronic Engineering.
    Zhou, Zhou
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Biomedical Engineering and Health Systems, Neuronic Engineering.
    Kleiven, Svein
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Biomedical Engineering and Health Systems, Neuronic Engineering.
    Villa, Alessandra
    KTH, School of Electrical Engineering and Computer Science (EECS), Centres, Centre for High Performance Computing, PDC.
    Which part of axonal membrane is the most vulnerable: A molecular dynamics/Finite Element study2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S39-S39Article in journal (Other academic)
  • 19.
    Marciniak, Antoni
    et al.
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics.
    Mitrovic, Darko
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics.
    Precise description of the GPCRs activation2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S142-S142Article in journal (Other academic)
  • 20.
    Marin-Aguilera, Guillem
    et al.
    KTH, Centres, Science for Life Laboratory, SciLifeLab.
    Volpato, Andrea
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics.
    Ollech, Dirk
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics.
    Alvelid, Jonatan
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics.
    Testa, Ilaria
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics.
    Novel methodology to measure rotational diffusivity in cells with fluorescence photo-switching2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S58-S58Article in journal (Other academic)
  • 21.
    Mårtensson, Gustaf
    et al.
    KTH, School of Engineering Sciences (SCI), Mechanics.
    Skote, Martin
    KTH, School of Engineering Sciences (SCI), Mechanics.
    Malmqvist, Mats
    Falk, Mats
    Asp, Allan
    Svanvik, Nicke
    Johansson, Arne V.
    Rapid PCR amplification of DNA utilizing Coriolis effects2006In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 35, no 6, p. 453-458Article in journal (Refereed)
    Abstract [en]

    A novel polymerase chain reaction (PCR) method is presented that utilizes Coriolis and centrifugal effects, produced by rotation of the sample disc, in order to increase internal circulatory rates, and with them temperature homogenization and mixing speeds. A proof of concept has been presented by testing a rapid 45-cycle PCR DNA amplification protocol. During the repeated heating and cooling that constitutes a PCR process, the 100 mu L samples were rotated at a speed equivalent to an effective acceleration of gravity of 7,000 g. A cycle time of 20.5 s gave a total process time of 15 min to complete the 45 cycles. A theoretical and numerical analysis of the resulting flow, which describes the increased mixing and temperature homogenization, is presented. The device gives excellent reaction speed efficiency, which is beneficial for rapid PCR.

  • 22.
    Osella, Silvio
    et al.
    Univ Warsaw, Biol Syst Simulat Lab, Warsaw, Poland..
    Paloncyova, Mark
    Palacky Univ, Czech Adv Technol & Res Inst, Prague, Czech Republic..
    Aniander, Gustav
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Theoretical Chemistry and Biology.
    Larsson, Emma
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Theoretical Chemistry and Biology.
    Sahi, Maryam
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Theoretical Chemistry and Biology.
    Knippenberg, Stefan
    Palacky Univ, Czech Adv Technol & Res Inst, Prague, Czech Republic.;UHasselt, Theory Lab, Hasselt, Belgium..
    Computational modeling reveals the influence of lipid membrane phases on fluorescent probes' optical properties2021In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 50, no SUPPL 1, p. 142-142Article in journal (Other academic)
  • 23.
    Pipatpolkai, Tanadet
    et al.
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics.
    Zhao, Lu
    Washington Univ, St Louis, MO 14263 USA..
    Mitrovic, Darko
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics.
    Cui, Jianmin
    Washington Univ, St Louis, MO 14263 USA..
    Delemotte, Lucie
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics.
    PIP2 binding at the voltage sensor domain modulates KCNQ1 VSD activation2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S150-S150Article in journal (Other academic)
  • 24.
    Pires, Rodrigo Sanches
    et al.
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Chemistry, Applied Physical Chemistry.
    Lendel, Christofer
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Chemistry, Applied Physical Chemistry.
    Controlling the assembly of protein nanofibril hydrogels2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S205-S205Article in journal (Other academic)
  • 25.
    Rigler, Rudolf
    et al.
    Karolinska Inst, Dept Med Biochem & Biophys, Stockholm, Sweden..
    Widengren, Jerker
    KTH, School of Engineering Sciences (SCI), Applied Physics, Experimental Biomolecular Physics.
    Fluorescence-based monitoring of electronic state and ion exchange kinetics with FCS and related techniques: from T-jump measurements to fluorescence fluctuations2018In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 47, no 4, p. 479-492Article in journal (Refereed)
    Abstract [en]

    In this review, we give a historical view of how our research in the development and use of fluorescence correlation spectroscopy (FCS) and related techniques has its roots and how it originally evolved from the pioneering work of Manfred Eigen, his colleagues, and coworkers. Work on temperature-jump (T-jump) experiments, conducted almost 50 years ago, led on to the development of the FCS technique. The pioneering work in the 1970s, introducing and demonstrating the concept for FCS, in turn formed the basis for the breakthrough use of FCS more than 15 years later. FCS can be used for monitoring reaction kinetics, based on fluctuations at thermodynamic equilibrium, rather than on relaxation measurements following perturbations. In this review, we more specifically discuss FCS measurements on photodynamic, electronic state transitions in fluorophore molecules, and on proton exchange dynamics in solution and on biomembranes. In the latter case, FCS measurements have proven capable of casting new light on the mechanisms of proton exchange at biological membranes, of central importance to bioenergetics and signal transduction. Finally, we describe the transient-state (TRAST) spectroscopy/imaging technique, sharing features with both relaxation (T-jump) and equilibrium fluctuation (FCS) techniques. TRAST is broadly applicable for cellular and molecular studies, and we briefly outline how TRAST can provide unique information from fluorophore blinking kinetics, reflecting e.g., cellular metabolism, rare molecular encounters, and molecular stoichiometries.

  • 26.
    Saeedimasine, M.
    et al.
    Karolinska Inst, Dept Biosci & Nutr, Huddinge, Sweden..
    Montanino, Annaclauida
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH).
    Kleiven, Svein
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Biomedical Engineering and Health Systems, Neuronic Engineering.
    Villa, A.
    Karolinska Inst, Dept Biosci & Nutr, Huddinge, Sweden..
    Impact of lipid composition and ion channel on the mechanical behavior of axonal membranes: a molecular simulation study2019In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 48, p. S99-S99Article in journal (Other academic)
  • 27.
    Shugaeva, Tatiana
    et al.
    KTH, Centres, Science for Life Laboratory, SciLifeLab. KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics.
    Haloi, Nandan
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics. KTH, Centres, Science for Life Laboratory, SciLifeLab.
    Howard, Rebecca J.
    Stockholm Univ, Dept Biochem & Biophys, Sci Life Lab, Stockholm, Sweden..
    Lindahl, Erik
    KTH, Centres, Science for Life Laboratory, SciLifeLab. KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics. Stockholm Univ, Dept Biochem & Biophys, Sci Life Lab, Stockholm, Sweden..
    Improving flexible protein fitting into cryo-EM maps using multiple conformers generated by AlphaFold 22023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S207-S207Article in journal (Other academic)
  • 28.
    Stilbs, Peter
    KTH, School of Chemical Science and Engineering (CHE), Chemistry.
    Automated CORE, RECORD, and GRECORD processing of multi-component PGSE NMR diffusometry data2013In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 42, no 1, p. 25-32Article in journal (Refereed)
    Abstract [en]

    Pulsed gradient spin-echo (PGSE) NMR techniques have found growing and widespread use for investigation of a variety of physicochemical phenomena in solution, because of their effect on molecular self-diffusion, and for primarily analytical purposes, for example separation of overlapping NMR bandshapes obtained from multi-component samples. A multi-component spectral separation approach previously introduced by the author (named CORE) is founded on the fact that each part of a molecule diffuses at the same rate, and thus PGSE NMR signals from each functional group will attenuate in a fully concerted fashion throughout a PGSE experiment. Numerical separation and analysis of component NMR spectra by CORE processing is therefore stabilized and steered by this prior knowledge constraint. However, even with two components and with similar self-diffusion rates, numerical instability and cross-talk between similar component self-diffusion may appear even with good experimental signal-to-noise ratio and only minor or no component spectral overlap. So-called RECORD processing was recently introduced to accompany the CORE method. In this more robust variant, spectra are divided into several sub-regions that are treated separately and combined in a later stage. The rationale for and advantages of the generic RECORD-based approach are further discussed and illustrated. A further hybrid CORE processing variant named GRECORD is suggested and briefly tested.

  • 29.
    Ullmann, R. T.
    et al.
    MPI Biophys, Theoret & Computat Biophys, Gottingen, Germany..
    Kutzner, C.
    MPI Biophys, Theoret & Computat Biophys, Gottingen, Germany..
    Beckmann, A.
    Julich Supercomp Ctr, IAS, Div Math, Julich, Germany..
    Kohnke, B.
    MPI Biophys, Theoret & Computat Biophys, Gottingen, Germany..
    Kabadashow, I.
    Julich Supercomp Ctr, IAS, Div Math, Julich, Germany..
    Dachsel, H.
    Julich Supercomp Ctr, IAS, Div Math, Julich, Germany..
    Hess, Berk
    KTH, School of Engineering Sciences (SCI), Theoretical Physics.
    Grubmueller, H.
    MPI Biophys, Theoret & Computat Biophys, Gottingen, Germany..
    GromEx: Electrostatics with chemical variability for realistic molecular simulations on the exascale2015In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 44, p. S145-S145Article in journal (Other academic)
  • 30.
    Venugopal Srambickal, Chinmaya
    et al.
    KTH, School of Engineering Sciences (SCI), Applied Physics, Quantum and Biophotonics.
    Du, Zhixue
    KTH, School of Engineering Sciences (SCI), Applied Physics, Quantum and Biophotonics.
    Widengren, Jerker
    KTH, School of Engineering Sciences (SCI), Applied Physics, Quantum and Biophotonics.
    Analysis of proton exchange and photo-induced isomerization kinetics of the pH-sensitive cyanine dye CypHer5E2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S211-S211Article in journal (Other academic)
  • 31.
    Wiktor, Jakub
    et al.
    Uppsala Univ, Dept Cell & Mol Biol, Sci Life Lab, Uppsala, Sweden..
    Gynna, Arvid H.
    Uppsala Univ, Dept Cell & Mol Biol, Sci Life Lab, Uppsala, Sweden..
    Leroy, Prune
    Uppsala Univ, Dept Cell & Mol Biol, Sci Life Lab, Uppsala, Sweden..
    Larsson, Jimmy
    Uppsala Univ, Dept Cell & Mol Biol, Sci Life Lab, Uppsala, Sweden..
    Coceano, Giovanna
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics. KTH, Centres, Science for Life Laboratory, SciLifeLab.
    Testa, Ilaria
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics. KTH, Centres, Science for Life Laboratory, SciLifeLab.
    Elf, Johan
    Uppsala Univ, Dept Cell & Mol Biol, Sci Life Lab, Uppsala, Sweden..
    Live cell imaging reveals that RecA finds homologous DNA by reduced dimensionality search2021In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 50, no SUPPL 1, p. 86-86Article in journal (Other academic)
  • 32.
    Wingbermühle, Sebastian
    et al.
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics.
    Lindahl, Erik
    KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics.
    Fully Automated Screening of Compound Libraries in Drug Discovery Using Docking and Molecular Dynamics2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S214-S214Article in journal (Other academic)
  • 33.
    Yoluk, Ozge
    et al.
    KTH, Centres, Science for Life Laboratory, SciLifeLab. KTH, Centres, SeRC - Swedish e-Science Research Centre. KTH, Stockholm, Sweden..
    Orellana, Laura
    KTH.
    Lindahl, E
    KTH.
    Microsecond time-scale dynamics of the pentameric ligand-gated ion channels: a comparative study2015In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 44, p. S219-S219Article in journal (Other academic)
  • 34.
    Zander, T.
    et al.
    Helmholtz Zentrum Geesthacht, Geesthacht, Germany..
    Wieland, F.
    Helmholtz Zentrum Geesthacht, Geesthacht, Germany..
    Wang, Min
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Chemistry, Surface and Corrosion Science.
    Raj, Akanksha
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Chemistry, Surface and Corrosion Science.
    Claesson, Per M.
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Chemistry, Surface and Corrosion Science.
    Dédinaité, Andra
    KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Chemistry, Surface and Corrosion Science.
    Haramus, V.
    Helmholtz Zentrum Geesthacht, Geesthacht, Germany..
    Schreyer, A.
    Helmholtz Zentrum Geesthacht, Geesthacht, Germany..
    Willumeit-Roemer, R.
    Helmholtz Zentrum Geesthacht, Geesthacht, Germany..
    XRR studies of the interaction of DPPC and hyaluronan at high hydrostatic pressure2015In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 44, p. S137-S137Article in journal (Other academic)
  • 35. Zelenina, M.
    et al.
    Brismar, Hjalmar
    Osmotic water permeability measurements using confocal laser scanning microscopy2000In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 29, no 3, p. 165-171Article in journal (Refereed)
    Abstract [en]

    We have developed a method for measurement of plasma membrane water permeability (P-f) in intact cells using laser scanning confocal microscopy. The method is based on confocal recording of the fluorescence intensity emitted by calcein-loaded adherent cells during osmotic shock. P-f is calculated as a function of the time constant in the fluorescence intensity change, the cell surface-to-volume ratio and the fractional content of the osmotically active cell volume. The method has been applied to the measurement of water permeability in MDCK cells. The cells behaved as linear osmometers in the interval from 100 to 350 mosM. About 57% of the total cell volume was found to be osmotically inactive. Water movement across the plasma membrane in intact MDCK cells was highly temperature dependent. HgCl2 had no effect on water permeability, while amphotericin B and DMSO significantly increased P-f values. The water permeability in MDCK cells transfected with aquaporin 2 was an order of magnitude higher than in the intact MDCK cell line. The water permeability of the nuclear membrane in both cell lines was found to be unlimited. Thus the intranuclear fluid belongs to the osmotically active portion of the cell. We conclude that the use of confocal microscopy provides a sensitive and reproducible method for measurement of water permeability in different types of adherent cells and potentially for coverslip-attached tissue preparations.

  • 36.
    Zhuang, Yuxuan
    et al.
    Stockholm Univ, Dept Biochem & Biophys, Sci Life Lab, Solna, Sweden..
    Howard, Rebecca
    Stockholm Univ, Dept Biochem & Biophys, Sci Life Lab, Solna, Sweden..
    Lindahl, Erik
    KTH, Centres, Science for Life Laboratory, SciLifeLab. KTH, School of Engineering Sciences (SCI), Applied Physics, Biophysics. Stockholm Univ, Dept Biochem & Biophys, Sci Life Lab, Solna, Sweden..
    Symmetry-Adapted Markov State Models of Closing, Opening, and Desensitizing in alpha 7 nicotinic acetylcholine receptors2023In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S166-S166Article in journal (Other academic)
1 - 36 of 36
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