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Inferring kinetic rate constants from single-molecule FRET trajectories – a blind benchmark of kinetic analysis tools
Markus Götz, Anders Barth, Søren S.-R. Bohr, Richard Börner, Jixin Chen, Thorben Cordes, Dorothy A. Erie, Christian Gebhardt, Mélodie C.A.S. Hadzic, George L. Hamilton, Nikos S. Hatzakis, Thorsten Hugel, Lydia Kisley, Don C. Lamb, Carlos de Lannoy, Chelsea Mahn, Dushani Dunukara, Dick de Ridder, Hugo Sanabria, Julia Schimpf, Claus A.M. Seidel, Roland K.O. Sigel, Magnus Berg Sletfjerding, Johannes Thomsen, Leonie Vollmar, Simon Wanninger, Keith R. Weninger, Pengning Xu, View ORCID ProfileSonja Schmid
doi: https://doi.org/10.1101/2021.11.23.469671
Markus Götz
1Centre de Biologie Structurale, CNRS UMR 5048, INSERM U1054, Univ Montpellier, 60 rue de Navacelles, 34090 Montpellier, France. PicoQuant GmbH, Rudower Chaussee 29, 12489 Berlin, Germany
Anders Barth
2Institut fu□r Physikalische Chemie, Lehrstuhl fu□r Molekulare Physikalische Chemie, Heinrich-Heine-Universita□t, Universitätsstr. 1, 40225 Du□sseldorf, Germany
3Department of Bionanoscience, Kavli Institute of Nanoscience Delft, Delft University of Technology, Van der Maasweg 9, 2629 HZ Delft, The Netherlands
Søren S.-R. Bohr
4Department of Chemistry & Nano-science Center, University of Copenhagen, 2100 Copenhagen, Denmark & Novo Nordisk Foundation Centre for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, 2100 Copenhagen, Denmark
Richard Börner
5Department of Chemistry, University of Zurich, 8057 Zurich, Switzerland
6Laserinstitut Hochschule Mittweida, University of Applied Sciences Mittweida, 09648 Mittweida, Germany
Jixin Chen
7Department of Chemistry and Biochemistry, Ohio University, Athens, Ohio, United States
Thorben Cordes
8Physical and Synthetic Biology, Faculty of Biology, Ludwig-Maximilians-Universität München, Großhadernerstr. 2-4, 82152 Planegg-Martinsried, Germany
Dorothy A. Erie
10Department of Chemistry, University of North Carolina, Chapel Hill, NC 27599, United States; and Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC 27599, United States
Christian Gebhardt
8Physical and Synthetic Biology, Faculty of Biology, Ludwig-Maximilians-Universität München, Großhadernerstr. 2-4, 82152 Planegg-Martinsried, Germany
Mélodie C.A.S. Hadzic
5Department of Chemistry, University of Zurich, 8057 Zurich, Switzerland
George L. Hamilton
11Department of Physics and Astronomy, Clemson University, Clemson, South Carolina, 29634, United States
Nikos S. Hatzakis
4Department of Chemistry & Nano-science Center, University of Copenhagen, 2100 Copenhagen, Denmark & Novo Nordisk Foundation Centre for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, 2100 Copenhagen, Denmark
Thorsten Hugel
12Institute of Physical Chemistry, University of Freiburg, Freiburg, Germany
13Signalling Research Centers BIOSS and CIBSS, University of Freiburg, Freiburg, Germany
Lydia Kisley
14Department of Physics, Case Western Reserve University, Cleveland, Ohio, United States
15Department of Chemistry, Case Western Reserve University, Cleveland, Ohio, United States
Don C. Lamb
9Department of Chemistry and Center for Nano Science (CeNS), Ludwig Maximilians-Universität München, Butenandtstraße 5-13, 81377 München, Germany
Carlos de Lannoy
16Bioinformatics Group, Wageningen University, Droevendaalsesteeg 1, 6708PB Wageningen, The Netherlands
Chelsea Mahn
17Department of Physics, North Carolina State University, Raleigh, NC, 27695, United States
Dushani Dunukara
14Department of Physics, Case Western Reserve University, Cleveland, Ohio, United States
Dick de Ridder
16Bioinformatics Group, Wageningen University, Droevendaalsesteeg 1, 6708PB Wageningen, The Netherlands
Hugo Sanabria
11Department of Physics and Astronomy, Clemson University, Clemson, South Carolina, 29634, United States
Julia Schimpf
12Institute of Physical Chemistry, University of Freiburg, Freiburg, Germany
18Spemann Graduate School of Biology and Medicine (SGBM), University of Freiburg
Claus A.M. Seidel
2Institut fu□r Physikalische Chemie, Lehrstuhl fu□r Molekulare Physikalische Chemie, Heinrich-Heine-Universita□t, Universitätsstr. 1, 40225 Du□sseldorf, Germany
Roland K.O. Sigel
5Department of Chemistry, University of Zurich, 8057 Zurich, Switzerland
Magnus Berg Sletfjerding
4Department of Chemistry & Nano-science Center, University of Copenhagen, 2100 Copenhagen, Denmark & Novo Nordisk Foundation Centre for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, 2100 Copenhagen, Denmark
Johannes Thomsen
4Department of Chemistry & Nano-science Center, University of Copenhagen, 2100 Copenhagen, Denmark & Novo Nordisk Foundation Centre for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, 2100 Copenhagen, Denmark
Leonie Vollmar
12Institute of Physical Chemistry, University of Freiburg, Freiburg, Germany
18Spemann Graduate School of Biology and Medicine (SGBM), University of Freiburg
Simon Wanninger
9Department of Chemistry and Center for Nano Science (CeNS), Ludwig Maximilians-Universität München, Butenandtstraße 5-13, 81377 München, Germany
Keith R. Weninger
17Department of Physics, North Carolina State University, Raleigh, NC, 27695, United States
Pengning Xu
17Department of Physics, North Carolina State University, Raleigh, NC, 27695, United States
Sonja Schmid
19NanoDynamicsLab, Laboratory of Biophysics, Wageningen University, Stippeneng 4, 6708WE Wageningen, The Netherlands
Posted March 21, 2022.
Inferring kinetic rate constants from single-molecule FRET trajectories – a blind benchmark of kinetic analysis tools
Markus Götz, Anders Barth, Søren S.-R. Bohr, Richard Börner, Jixin Chen, Thorben Cordes, Dorothy A. Erie, Christian Gebhardt, Mélodie C.A.S. Hadzic, George L. Hamilton, Nikos S. Hatzakis, Thorsten Hugel, Lydia Kisley, Don C. Lamb, Carlos de Lannoy, Chelsea Mahn, Dushani Dunukara, Dick de Ridder, Hugo Sanabria, Julia Schimpf, Claus A.M. Seidel, Roland K.O. Sigel, Magnus Berg Sletfjerding, Johannes Thomsen, Leonie Vollmar, Simon Wanninger, Keith R. Weninger, Pengning Xu, Sonja Schmid
bioRxiv 2021.11.23.469671; doi: https://doi.org/10.1101/2021.11.23.469671
Inferring kinetic rate constants from single-molecule FRET trajectories – a blind benchmark of kinetic analysis tools
Markus Götz, Anders Barth, Søren S.-R. Bohr, Richard Börner, Jixin Chen, Thorben Cordes, Dorothy A. Erie, Christian Gebhardt, Mélodie C.A.S. Hadzic, George L. Hamilton, Nikos S. Hatzakis, Thorsten Hugel, Lydia Kisley, Don C. Lamb, Carlos de Lannoy, Chelsea Mahn, Dushani Dunukara, Dick de Ridder, Hugo Sanabria, Julia Schimpf, Claus A.M. Seidel, Roland K.O. Sigel, Magnus Berg Sletfjerding, Johannes Thomsen, Leonie Vollmar, Simon Wanninger, Keith R. Weninger, Pengning Xu, Sonja Schmid
bioRxiv 2021.11.23.469671; doi: https://doi.org/10.1101/2021.11.23.469671
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