Prof. Dr. Jan Lipfert
| Telefon: | +49 821 598 3300 |
| E-Mail: | jan.lipfert@uni-auni-a.de () |
| Raum: | 340 (R) |
| Sprechzeiten: | Anmeldung im Sekretariat |
| Adresse: | Universitätsstraße 1 (Physik Nord), 86159 Augsburg |
Lebenslauf
- seit 2024: Professor (W3), Institut für Physik
Universität Augsburg - seit 2022: Professor ("hoogleraar"), Department of Physics
Universität Utrecht, Niederlande - 2018-2022: Prodekan, Fakultät für Physik
LMU München - 2013-2022: Professor (W2, tenured seit 2018), Fakultät für Physik
LMU München - 2008-2013: Post doc and Veni fellow, Department of Bionanoscience
TU Delft, Niederlande - 2002-2008: Ph.D. in Physik
Stanford University, USA - 2001-2002: M.Sc. in Physik
University of Illinois at Urbana-Champaign, IL, USA - 2000-2001: M.Phil. in Physik und Mathematik
Universität Uppsala, Schweden - 1998-2000: Vordiplom in Volkswirtschaftslehre
Universität Heidelberg - 1998-2000: Vordiplom in Physik
Universität Heidelberg
Auszeichnungen und Preise
- 2022 Lehrpreis der Fakultät für Biologie ("BioPlus"), LMU München
- 2021 Lehrpreis der Fakultät für Chemie und Pharmazie ("Preis für gute Lehre"), LMU München
- 2020 ERC Consolidator Grant (Beginn: 2022)
- 2020 Lehrpreis der Fakultät für Biologie ("BioPlus"), LMU München
- 2019 CeNS publication award in der Kategorie "scientific breakthrough"
- 2019 Lehrpreis der Fakultät für Physik für die beste Bachelorvorlesung ("Goldener Sommerfeld"), LMU München
- 2018 Lehrpreis der Fakultät für Chemie und Pharmazie ("Preis für gute Lehre"), LMU München
- 2018 F1000 section head "Methods in Biological Physics"
- 2016 Forschung@LMU Preis für studentische Forschung
- 2016 CeNS publication award in der Kategorie "scientific breakthrough"
- 2010-2013 Veni fellowship der Netherlands Organisation for Scientific Research (NWO)
- 2007 Margaret C. Etter Student Lecturer Award der American Crystallographic Association
- 2006 Student travel award für das 2006 SAS meeting in Kyoto, Japan
- 2001-2002 Fulbright Stipendium
- 2001-2004 Stipendium der Studienstiftung des Deutschen Volkes
Forschungsschwerpunkte
Publikationen
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2025 |
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Samuel Stubhan, Anna V. Baptist, Caroline Körösy, Alessandra Narducci, Gustavo Gabriel Moya Muñoz, Nicolas Wendler, Aidin Lak, Michael Sztucki, Thorben Cordes und Jan Lipfert
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2024 |
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Stefanie D. Pritzl, Alptuğ Ulugöl, Caroline Körösy, Laura Filion und Jan Lipfert
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Aidin Lak, Yihao Wang, Pauline J. Kolbeck, Christoph Pauer, Mohammad Suman Chowdhury, Marco Cassani, Frank Ludwig, Thilo Viereck, Florian Selbach, Philip Tinnefeld, Meinhard Schilling, Tim Liedl, Joe Tavacoli und Jan Lipfert
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Samuel Stubhan, Anna V. Baptist, Caroline Körösy, Alessandra Narducci, Gustavo Gabriel Moya Muñoz, Nicolas Wendler, Aidin Lak, Michael Sztucki, Thorben Cordes und Jan Lipfert
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Yi-Yun Lin, Peter Müller, Evdoxia Karagianni, Nicola Hepp, Felix Mueller-Planitz, Willem Vanderlinden und Jan Lipfert
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Marjolein de Jager, Pauline J. Kolbeck, Willem Vanderlinden, Jan Lipfert und Laura Filion
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Pauline J. Kolbeck, Marjolein de Jager, Margherita Gallano, Tine Brouns, Ben Bekaert, Wout Frederickx, Sebastian F. Konrad, Siska Van Belle, Frauke Christ, Steven De Feyter, Zeger Debyser, Laura Filion, Jan Lipfert und Willem Vanderlinden
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Li-Ting Chen, Myrthe Jager, Dàmi Rebergen, Geertruid J. Brink, Tom van den Ende, Willem Vanderlinden, Pauline Kolbeck, Marc Pagès-Gallego, Ymke van der Pol, Nicolle Besselink, Norbert Moldovan, Nizar Hami, Wigard Kloosterman, Hanneke van Laarhoven, Florent Mouliere, Ronald Zweemer, Jan Lipfert, Sarah Derks, Alessio Marcozzi und Jeroen de Ridder
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Magnus S. Bauer, Sophia Gruber, Adina Hausch, Marcelo C. R. Melo, Priscila S. F. C. Gomes, Thomas Nicolaus, Lukas F. Milles, Hermann E. Gaub, Rafael C. Bernardi und Jan Lipfert
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Pauline J. Kolbeck, Miloš Tišma, Brian T. Analikwu, Willem Vanderlinden, Cees Dekker und Jan Lipfert
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Hana Dohnalová, Mona Seifert, Eva Matoušková, Misha Klein, Flávia S. Papini, Jan Lipfert, David Dulin und Filip Lankaš
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2023 |
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Pauline J. Kolbeck, Mihir Dass, Irina V. Martynenko, Relinde J. A. van Dijk-Moes, Kelly J. H. Brouwer, Alfons van Blaaderen, Willem Vanderlinden, Tim Liedl und Jan Lipfert
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Yi-Yun Lin, Tine Brouns, Pauline J. Kolbeck, Willem Vanderlinden und Jan Lipfert
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Christian Gebhardt, Pascal Bawidamann, Konstantin Schütze, Gabriel G. Moya Muñoz, Anna-Katharina Spring, Douglas A. Griffith, Jan Lipfert und Thorben Cordes
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Pauline J. Kolbeck, Dihia Benaoudia, Léa Chazot-Franguiadakis, Gwendoline Delecourt, Jérôme Mathé, Sha Li, Romeo Bonnet, Pascal Martin, Jan Lipfert, Anna Salvetti, Mordjane Boukhet, Véronique Bennevault, Jean-Christophe Lacroix, Philippe Guégan und Fabien Montel
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2022 |
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Sophia Gruber, Achim Löf, Adina Hausch, Fabian Kutzki, Res Jöhr, Tobias Obser, Gesa König, Reinhard Schneppenheim, Camilo Aponte-Santamaría, Frauke Gräter, Maria A. Brehm, Martin Benoit und Jan Lipfert
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Magnus S. Bauer, Sophia Gruber, Adina Hausch, Priscila S. F. C. Gomes, Lukas F. Milles, Thomas Nicolaus, Leonard C. Schendel, Pilar López Navajas, Erik Procko, Daniel Lietha, Marcelo C. R. Melo, Rafael C. Bernardi, Hermann E. Gaub und Jan Lipfert
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Willem Vanderlinden, Enrico Skoruppa, Pauline J. Kolbeck, Enrico Carlon und Jan Lipfert
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Sebastian F. Konrad, Willem Vanderlinden und Jan Lipfert
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Sergio Cruz-León, Willem Vanderlinden, Peter Müller, Tobias Forster, Georgina Staudt, Yi-Yun Lin, Jan Lipfert und Nadine Schwierz
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2021 |
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Willem Vanderlinden und Jan Lipfert
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Sebastian Konrad, Willem Vanderlinden und Jan Lipfert
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Sebastian F. Konrad, Willem Vanderlinden, Wout Frederickx, Tine Brouns, Björn H. Menze, Steven De Feyter und Jan Lipfert
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Pauline J. Kolbeck, Willem Vanderlinden, Gerd Gemmecker, Christian Gebhardt, Martin Lehmann, Aidin Lak, Thomas Nicolaus, Thorben Cordes und Jan Lipfert
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Ann-Kathrin Reichenwallner, Esma Vurmaz, Kristina Battis, Laura Handl, Helin Üstün, Tivadar Mach, Gabriele Hörnig, Jan Lipfert und Lukas Richter
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2020 |
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Willem Vanderlinden, Pauline J. Kolbeck, Franziska Kriegel, Philipp U. Walker und Jan Lipfert
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Shan Zhao, Mihail Ivilinov Todorov, Ruiyao Cai, Rami Al-Maskari, Hanno Steinke, Elisabeth Kemter, Hongcheng Mai, Zhouyi Rong, Martin Warmer, Karen Stanic, Oliver Schoppe, Johannes Christian Paetzold, Benno Gesierich, Milagros N. Wong, Tobias B. Huber, Marco Duering, Oliver Thomas Bruns, Bjoern Menze, Jan Lipfert, Victor G. Puelles, Eckhard Wolf, Ingo Bechmann und Ali Ertürk
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Hana Dohnalová, Tomáš Dršata, Jiří Šponer, Martin Zacharias, Jan Lipfert und Filip Lankaš
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Sophia Gruber, Achim Löf, Steffen M. Sedlak, Martin Benoit, Hermann E. Gaub und Jan Lipfert
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Katharina Ott, Linda Martini, Jan Lipfert und Ulrich Gerland
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Aidin Lak, Tamara Kahmann, Simon Jakob Schaper, Jaroslava Obel, Frank Ludwig, Peter Müller-Buschbaum und Jan Lipfert
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Willem Vanderlinden, Pauline J. Kolbeck, Tine Brouns, Zeger Debyser und Jan Lipfert
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Sophia Gruber, Achim Löf, Tobias Obser, Maria A. Brehm, Martin Benoit und Jan Lipfert
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Thomas Zettl, Xuesong Shi, Steve Bonilla, Steffen M. Sedlak, Jan Lipfert und Daniel Herschlag
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2019 |
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Abhijeet Pataskar, Willem Vanderlinden, Johannes Emmerig, Aditi Singh, Jan Lipfert und Vijay K. Tiwari
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Achim Löf, Philipp U. Walker, Steffen M. Sedlak, Sophia Gruber, Tobias Obser, Maria A. Brehm, Martin Benoit und Jan Lipfert
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Willem Vanderlinden, Pauline J. Kolbeck, Wout Frederickx, Sebastian F. Konrad, Thomas Nicolaus, Carola Lampe, Alexander S. Urban, Cécile Moucheron und Jan Lipfert
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Willem Vanderlinden, Tine Brouns, Philipp U. Walker, Pauline J. Kolbeck, Lukas F. Milles, Wolfgang Ott, Philipp C. Nickels, Zeger Debyser und Jan Lipfert
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2018 |
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Philipp U. Walker, Willem Vanderlinden und Jan Lipfert
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Tine Brouns, Herlinde De Keersmaecker, Sebastian F. Konrad, Noriyuki Kodera, Toshio Ando, Jan Lipfert, Steven De Feyter und Willem Vanderlinden
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Thomas Zettl, Rebecca S. Mathew, Xuesong Shi, Sebastian Doniach, Daniel Herschlag, Pehr A. B. Harbury und Jan Lipfert
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Franziska Kriegel, Willem Vanderlinden, Thomas Nicolaus, Angelika Kardinal und Jan Lipfert
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Jan Lipfert
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Miloš T. Ivanović, Linda K. Bruetzel, Roman Shevchuk, Jan Lipfert und Jochen S. Hub
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Maarten M. van Oene, Seungkyu Ha, Tessa Jager, Mina Lee, Francesco Pedaci, Jan Lipfert und Nynke H. Dekker
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Thomas Zettl, Rhiju Das, Pehr A. B. Harbury, Daniel Herschlag, Jan Lipfert, Rebecca S. Mathew und Xuesong Shi
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Nadine Harrer, Christina E. M. Schindler, Linda K. Bruetzel, Ignasi Forné, Johanna Ludwigsen, Axel Imhof, Martin Zacharias, Jan Lipfert und Felix Mueller-Planitz
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Miloš T. Ivanović, Linda K. Bruetzel, Jan Lipfert und Jochen S. Hub
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Franziska Kriegel, Christian Matek, Tomáš Dršata, Klara Kulenkampff, Sophie Tschirpke, Martin Zacharias, Filip Lankaš und Jan Lipfert
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Linda K. Bruetzel, Philipp U. Walker, Thomas Gerling, Hendrik Dietz und Jan Lipfert
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2017 |
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Maarten M. van Oene, Laura E. Dickinson, Bronwen Cross, Francesco Pedaci, Jan Lipfert und Nynke H. Dekker
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Hayk Vardanyan, Simon Sindbert, Stanislav Kalinin, Christian A. Hanke, Tomasz Soltynski, Grzegorz Lach, Danilo Springstubbe, Bettina Apel, Edward Snell, Thomas D. Grant, Jan Lipfert, Sabine Müller, Janusz M. Bujnicki, Holger Gohlke und Claus A. M. Seidel
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F. Kriegel und Jan Lipfert
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L. K. Brützel, P. U. Walker, T. Gerling, H. Dietz und Jan Lipfert
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P. U. Walker, A. Löf und Jan Lipfert
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Franziska Kriegel, Niklas Ermann und Jan Lipfert
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Franziska Kriegel, Niklas Ermann, Ruaridh Forbes, David Dulin, Nynke H. Dekker und Jan Lipfert
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Steffen M. Sedlak, Linda K. Bruetzel und Jan Lipfert
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Sabrina Simoncelli, Samuel Johnson, Franziska Kriegel, Jan Lipfert und Jochen Feldmann
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Stefanos K. Nomidis, Franziska Kriegel, Willem Vanderlinden, Jan Lipfert und Enrico Carlon
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2016 |
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Linda K. Bruetzel, Stefan Fischer, Annalena Salditt, Steffen M. Sedlak, Bert Nickel und Jan Lipfert
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Thomas Zettl, Rebecca S. Mathew, Sönke Seifert, Sebastian Doniach, Pehr A. B. Harbury und Jan Lipfert
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Linda K. Bruetzel, Thomas Gerling, Steffen M. Sedlak, Philipp U. Walker, Wenjun Zheng, Hendrik Dietz und Jan Lipfert
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Christina E. M. Schindler, Nadine Harrer, Jan Lipfert, Felix Müller-Planitz und Martin Zacharias
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Jochen P. Müller, Achim Löf, Salomé Mielke, Tobias Obser, Linda K. Bruetzel, Willem Vanderlinden, Jan Lipfert, Reinhard Schneppenheim und Martin Benoit
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2015 |
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Maarten M. van Oene, Laura E. Dickinson, Francesco Pedaci, Mariana Köber, David Dulin, Jan Lipfert und Nynke H. Dekker
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Magdalena Gebala, George M. Giambaşu, Jan Lipfert, Namita Bisaria, Steve Bonilla, Guangchao Li, Darrin M. York und Daniel Herschlag
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Jan Lipfert und N. H. Dekker
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Korbinian Liebl, Tomas Drsata, Filip Lankas, Jan Lipfert und Martin Zacharias
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David Dulin, Tao Ju Cui, Jelmer Cnossen, Margreet W. Docter, Jan Lipfert und Nynke H. Dekker
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Rifka Vlijm, Mina Lee, Jan Lipfert, Alexandra Lusser, Cees Dekker und Nynke H. Dekker
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Jan Lipfert, Maarten M. van Oene, Mina Lee, Francesco Pedaci und Nynke H. Dekker
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2014 |
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Z. Yu, D. Dulin, J. P. Cnossen, M. Kober, M. M. van Oene, O. Ordu, B. A. Berghuis, T. Hensgens, Jan Lipfert und N. H. Dekker
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Zhongbo Yu, David Dulin, Jelmer Cnossen, Mariana Köber, Maarten M. van Oene, Orkide Ordu, Bojk A. Berghuis, Toivo Hensgens, Jan Lipfert und Nynke H. Dekker
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Fang-Chieh Chou, Jan Lipfert und Rhiju Das
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Jan Lipfert, Gary M. Skinner, Johannes M. Keegstra, Toivo Hensgens, Tessa Jager, David Dulin, Mariana Köber, Zhongbo Yu, Serge P. Donkers, Fang-Chieh Chou, Rhiju Das und Nynke H. Dekker
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Jan Lipfert, Mina Lee, Orkide Ordu, Jacob W. J. Kerssemakers und Nynke H. Dekker
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Maarten van Oene, Laura E. Dickinson, Francesco Pedaci, Jan Lipfert, David Dulin, Jelmer P. Cnossen, Margreet W. Docter und Nynke H. Dekker
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Rifka Vlijm, Mina Lee, Jan Lipfert, Alexandra Lusser, Cees Dekker und Nynke H. Dekker
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Jan Lipfert, Maarten van Oene, Tessa Jager, Mina Lee, Francesco Pedaci und Nynke H. Dekker
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Willem Vanderlinden, Jan Lipfert, Jonas Demeulemeester, Zeger Debyser und Steven De Feyter
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Ryan C. Oliver, Jan Lipfert, Daniel A. Fox, Ryan H. Lo, Justin J. Kim, Sebastian Doniach und Linda Columbus
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Jan Lipfert, Sebastian Doniach, Rhiju Das und Daniel Herschlag
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2013 |
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Ryan C. Oliver, Jan Lipfert, Daniel A. Fox, Ryan H. Lo, Sebastian Doniach und Linda Columbus
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Ryan C. Oliver, Jan Lipfert und Linda Columbus
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Jan Lipfert, Gary M. Skinner, Johannes Keegstra, Toivo Hensgens, Tessa Jager, David Dulin, Serge Donkers und Nynke H. Dekker
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M. Lee, Jan Lipfert, H. Sanchez, C. Wyman und N. H. Dekker
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David Dulin, Jan Lipfert, M. Charl Moolman und Nynke H. Dekker
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2012 |
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Xander J. A. Janssen, Jan Lipfert, Tessa Jager, Renier Daudey, Jaap Beekman und Nynke H. Dekker
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Xander J. A. Janssen, Jan Lipfert, C. F. Daudey, Jelle van der Does, Dimitri Roos, Jaap Beekman und Nynke H. Dekker
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Adelene Y. L. Sim, Jan Lipfert, Daniel Herschlag und Sebastian Doniach
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Adele Y. L. Sim, Jan Lipfert, Daniel Herschlag und Sebastian Doniach
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S. Doniach und Jan Lipfert
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Jan Lipfert, Gary M. Skinner, Serge Donkers, Zhuangxiong Huang, David Dulin, Johannes M. Keegstra, Toivo Hensgens und Nynke H. Dekker
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2011 |
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Jan Lipfert, Jacob J. W. Kerssemakers, Maylon Rojer und Nynke H. Dekker
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Gary M. Skinner, Serge P. Donkers, Jan Lipfert, Zhuangxiong Huang und Nynke H. Dekker
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Jan Lipfert, Matthew Wiggin, Jacob W. J. Kerssemakers, Francesco Pedaci und Nynke H. Dekker
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Matthew J. Wiggin, Jan Lipfert, Roeland van Wijk, Jakob Kerssemakers und Nynke Dekker
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Jan Lipfert, Gary M. Skinner, Matthew J. Wiggin, Jacob W. K. Kerssemakers, Tessa Jager und Nynke H. Dekker
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Jan Lipfert, F. Pedaci, M. Wiggin, Z. Huang, J. W. J. Kerssemakers, G. M. Skinner, S. Barland, T. Jager, M. van Oene und N. H. Dekker
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Aartjan J. W. te Velthuis, Jacob W. J. Kerssemakers, Jan Lipfert und Nynke H. Dekker
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Jan Lipfert, Daniel Herschlag, Sebastian Doniach und Nynke H. Dekker
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2010 |
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S. Menze, C. Menze, Jan Lipfert, B. Menze und G. Harsch
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Jan Lipfert, Adelene Y. L. Sim, Daniel Herschlag und Sebastian Doniach
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Jan Lipfert, Jacob W. J. Kerssemakers, Tessa Jager und Nynke H. Dekker
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Aartjan J. W. te Velthuis, Jacob W. J. Kerssemakers, Jan Lipfert und Nynke H. Dekker
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Gary M. Skinner, Serge P. Donkers, Jan Lipfert und Nynke H. Dekker
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Mona Ali, Jan Lipfert, Soenke Seifert, Daniel Herschlag und Sebastian Doniach
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Jan Lipfert, Peter Jan Laverman, Iris Koster, Komaraiah Palle, Mary-Ann Bjornsti und Nynke H. Dekker
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Jan Lipfert, S. Klijnhout und N. H. Dekker
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2009 |
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Vincent B. Chu, Jan Lipfert, Yu Bai, Vijay S. Pande, Sebastian Doniach und Daniel Herschlag
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I. D. Vilfan, Jan Lipfert, D. A. Koster, S. G. Lemay und N. H. Dekker
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Linda Columbus, Jan Lipfert, Kalyani Jambunathan, Daniel A. Fox, Adelene Y. L. Sim, Sebastian Doniach und Scott A. Lesley
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Linda Columbus, Jan Lipfert, Kalyani Jambunathan, Daniel A. Fox, Adelene Y. L. Sim, Sebastian Doniach und Scott A. Lesley
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Jan Lipfert, Xiaomin Hao und Nynke H. Dekker
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Jan Lipfert, Daniel Herschlag und Sebastian Doniach
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Adelene Y. L. Sim, Jan Lipfert, Daniel Herschlag und Sebastian Doniach
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Jan Lipfert, Daniel A. Koster, Igor D. Vilfan, Susanne Hage und Nynke H. Dekker
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Jan Lipfert, Sven Klijnhout und Nynke H. Dekker
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Sebastian Doniach und Jan Lipfert
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2008 |
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Vincent B. Chu, Yu Bai, Jan Lipfert, Daniel Herschlag und Sebastian Doniach
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Yu Bai, Vincent B. Chu, Jan Lipfert, Vijay S. Pande, Daniel Herschlag und Sebastian Doniach
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Benjamin J. Spink, Sivaraj Sivaramakrishnan, Jan Lipfert, Sebastian Doniach und James A. Spudich
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Jan Lipfert, Jonathan Ouellet, David G. Norman, Sebastian Doniach und David M. J. Lilley
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2007 |
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Jan Lipfert
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Jan Lipfert, Linda Columbus, Vincent B. Chu und Sebastian Doniach
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Vincent B. Chu, Yu Bai, Jan Lipfert, Daniel Herschlag und Sebastian Doniach
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Jan Lipfert, Vincent B. Chu, Yu Bai, Daniel Herschlag und Sebastian Doniach
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Jan Lipfert, Vincent B. Chu, Yu Bai, Jonathan Ouellet, David M. J. Lilley, Daniel Herschlag und Sebastian Doniach
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Yu Bai, Max Greenfeld, Kevin J. Travers, Vincent B. Chu, Jan Lipfert, Sebastian Doniach und Daniel Herschlag
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Jan Lipfert, Linda Columbus, Vincent B. Chu, Scott A. Lesley und Sebastian Doniach
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Jan Lipfert
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Jan Lipfert und Sebastian Doniach
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Jan Lipfert, Rhiju Das, Vincent B. Chu, Madhuri Kudaravalli, Nathan Boyd, Daniel Herschlag und Sebastian Doniach
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Timothy J. Wilson, Jonathan Oullet, Jan Lipfert, Aileen McLeod und David M. J. Lilley
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2006 |
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Linda Columbus, Jan Lipfert, Heath Klock, Ian Millett, Sebastian Doniach und Scott A. Lesley
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Gautam Dantas, Alexander L. Watters, Bradley M. Lunde, Ziad M. Eletr, Nancy G. Isern, Toby Roseman, Jan Lipfert, Sebastian Doniach, Martin Tompa, Brian Kuhlman, Barry L. Stoddard, Gabriele Varani und David Baker
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Jan Lipfert, Ian S. Millett, Sönke Seifert und Sebastian Doniach
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2005 |
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Jan Lipfert, Joel Franklin, Fang Wu und Sebastian Doniach
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Bojan Zagrovic, Jan Lipfert, Eric J. Sorin, Ian S. Millett, Wilfred F. van Gunsteren, Sebastian Doniach und Vijay S. Pande
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Jan Lipfert und S. Donaich
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2004 |
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Jan Lipfert, Jorge Llano und Leif A. Eriksson
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2024
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Stefanie D. Pritzl, Alptug Ulugöl, Caroline Körösy, Laura Filion, and Jan Lipfert
Accurate drift-invariant single-molecule force calibration using the Hadamard variance
Biophys J. 123(22):3964-3976 (2024) -
Marjolein de Jager, Pauline J. Kolbeck, Willem Vanderlinden, Jan Lipfert, and Laura Filion
Exploring protein-mediated compaction of DNA by coarse-grained simulations and unsupervised learning
Biophys J. 123(18):3231-3241 (2024) -
Yi-Yun Lin, Peter Müller, Evdoxia Karagianni, Nicola Hepp, Felix Mueller-Planitz, Willem Vanderlinden, and Jan Lipfert
Epigenetic Histone Modifications H3K36me3 and H4K5/8/12/16ac Induce Open Polynucleosome Conformations via Different MechanismsJ. Mol. Biol. 436(16):168671 (2024)
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Hana Dohnalová, Mona Seifert, Eva Matoušková, Misha Klein, Flávia S. Papini, Jan Lipfert, David Dulin, and Filip Lankas
Temperature-Dependent Twist of Double-Stranded RNA Probed by Magnetic Tweezer Experiments and Molecular Dynamics Simulations
J. Phys. Chem. B 128(3):664-675 (2024) -
Aidin Lak, Yihao Wang, Pauline J. Kolbeck, Christoph Pauer, Mohammad Suman Chowdhury, Marco Cassani, Frank Ludwig, Thilo Viereck, Florian Selbach, Philip Tinnefeld, Meinhard Schilling, Tim Liedl, Joe Tavacoli, and Jan Lipfert
Cooperative dynamics of DNA-grafted magnetic nanoparticles optimize magnetic biosensing and coupling to DNA origami
Nanoscale 16(15):7678-7689 (2024) -
Magnus S. Bauer, Sophia Gruber, Adina Hausch, Marcelo C.R. Melo, Priscila S.F.C. Gomes, Thomas Nicolaus, Lukas F. Milles, Hermann E. Gaub, Rafael C. Bernardi, and Jan Lipfert
Single-molecule force stability of the SARS-CoV-2–ACE2 interface in variants-of-concern
Nature Nanotechnol. 3:399-405 (2024)
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Pauline J. Kolbeck, Miloš Tišma, Brian T. Analikwu, Willem Vanderlinden, Cees Dekker, and Jan Lipfert
Supercoiling-dependent DNA binding: quantitative modeling and applications to bulk and single-molecule experiments
Nucleic Acids Res. 52(1):59-72 (2024)
2023
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Pauline J. Kolbeck, Dihia Benaoudia, Léa Chazot-Franguiadakis, Gwendoline Delecourt, Jérôme Mathé, Sha Li, Romeo Bonnet, Pascal Martin, Jan Lipfert, Anna Salvetti, Mordjane Boukhet, Véronique Bennevault, Jean-Christophe Lacroix, Philippe Guégan, and Fabien Montel
Nano Letters 23:4862-4869 (2023) [Link]
Thermally Switchable Nanogate Based on Polymer Phase Transition - Yi-Yun Lin, Tine Brouns, Pauline J. Kolbeck, Willem Vanderlinden, and Jan Lipfert
High-yield, ligation-free assembly of DNA constructs with nucleosome positioning sequence repeats for single molecule manipulation assays
J Biol Chem. 299(7):104874 (2023) [Link] - Pauline J. Kolbeck, Mihir Dass, Irina V. Martynenko, Relinde J.A. van Dijk-Moes, Kelly J.H. Brouwer, Alfons van Blaaderen, Willem Vanderlinden, Tim Liedl, and Jan Lipfert
A DNA origami fiducial for accurate 3D AFM imaging
Nano Letters 22:1236-1243 (2023) [Link]
2022
- Willem Vanderlinden†, Enrico Skoruppa†, Pauline J Kolbeck, Enrico Carlon*, and Jan Lipfert*
DNA fluctuations reveal the size and dynamics of topological domains
PNAS Nexus 1(5):pgac268 (2022) (†Authors contributed equally; *Joint corresponding authorship)
[PDF][Supplementary Information PDF] - Sophia Gruber†, Achim Löf†, Adina Hausch, Fabian Kutzki, Res Jöhr, Tobias Obser, Gesa König, Reinhard Schneppenheim, Camilo Aponte-Santamaría, Frauke Gräter, Maria A. Brehm, Martin Benoit*, and Jan Lipfert*
A conformational transition of the D'D3 domain primes von Willebrand factor for multimerization
Blood Adv. 6:5198-5209 (2022) (†Authors contributed equally; *Joint corresponding authorship)
[PDF][Supplementary information PDF] - Sergio Cruz-León†, Willem Vanderlinden†, Peter Müller, Tobias Forster, Georgina Staudt, Yi-Yun Lin, Jan Lipfert*, and Nadine Schwierz*
Twisting DNA by Salt
Nucleic Acids Res. 50:5726-5738 (2022) (†Authors contributed equally; *Joint corresponding authorship)
[PDF][Supplementary information PDF] - Magnus Sebastian Bauer†, Sophia Gruber†, Adina Hausch, Priscila S.F.C. Gomes, Lukas F. Milles, Thomas Nicolaus, Leonard C. Schendel, Pilar López-Navajas, Erik Procko, Daniel Lietha, Marcelo C.R. Melo, Rafael C Bernardi, Hermann E. Gaub, and Jan Lipfert
A Tethered Ligand Assay to Probe SARS-CoV-2:ACE2 Interactions
Proc. Natl. Acad. Sci. U.S.A. 119:e2114397119 (†Authors contributed equally)
[PDF][Supplementary information PDF] - Sebastian F Konrad, Willem Vanderlinden, Jan Lipfert
Quantifying epigenetic modulation of nucleosome breathing by high-throughput AFM imaging
Biophys. J. 121:841-851 (2022)
[PDF][Supplementary information PDF]
2021
- Sebastian F Konrad, Willem Vanderlinden, Jan Lipfert
A High-throughput Pipeline to Determine DNA and Nucleosome Conformations by AFM Imaging
Bio Protoc. 11(19):e4180 (2021) - Willem Vanderlinden and Jan Lipfert
A Gentle Twist on DNA
Physics 14(98):1-3 (2021)
[PDF] - Pauline J. Kolbeck, Willem Vanderlinden*, Gerd Gemmecker, Christian Gebhardt, Martin Lehmann, Aidin Lak, Thomas Nicolaus, Thorben Cordes, and Jan Lipfert*
Molecular structure, DNA binding mode, photophysical properties and recommendations for use of SYBR Gold
Nucleic Acids Res. 49:5143–5158 (2021) (*Joint corresponding authorship)
[PDF][Supplementary information PDF][Correction] - Ann-Kathrin Reichenwallner, Esma Vurmaz, Kristina Battis, Laura Handl, Helin Üstün, Tivadar Mach, Gabriele Hörnig, Jan Lipfert, and Lukas Richter
Optical Investigation of Individual Red Blood Cells for Determining Cell Count and Cellular Hemoglobin Concentration in a Microfluidic Channel
Micromachines 12(4):358 (2021)
[Link] - Sebastian F. Konrad, Willem Vanderlinden, Wout Frederickx, Tine Brouns, Bjoern Menze, Steven De Feyter, and Jan Lipfert
High-throughput AFM analysis reveals unwrapping pathways of H3 and CENP-A nucleosomes
Nanoscale 13(10):5435-5447 (2021)
[PDF][Supplementary information PDF]
2020
- Magnus S. Bauer, Sophia Gruber, Lukas F. Milles, Thomas Nicolaus, Leonard C. Schendel, Hermann E. Gaub, and Jan Lipfert
A Tethered Ligand Assay to Probe the SARS-CoV-2 ACE2 Interaction under Constant Force
[bioRxiv preprint] - Helena Lipfert and Jan Lipfert
Der Elektronikbaukasten Kosmos Easy Elektro – Start (Review, in German)
Physik in unserer Zeit 51:307 (2020)
[PDF] - Sophia Gruber†, Achim Löf†, Steffen M. Sedlak†, Martin Benoit, Hermann E. Gaub, and Jan Lipfert
Designed Anchoring Geometries Determine Lifetimes of Biotin-Streptavidin Bonds under Constant Load and Enable Ultra-Stable Coupling
Nanoscale 12:21131-21137 (2020) (†Authors contributed equally)
[PDF][Supplementary information PDF] - Thomas Zettl, Xuesong Shi, Steve Bonilla, Steffen M. Sedlak, Jan Lipfert*, and Daniel Herschlag*
The Structural Ensemble of a Holliday Junction Determined by X-Ray Scattering Interference
Nucleic Acids Res. 48:8090-8098 (2020) (*Joint corresponding authorship)
[PDF][Supplementary information PDF] - Willem Vanderlinden, Pauline J. Kolbeck, Franziska Kriegel, Philipp U. Walker, and Jan Lipfert
A benchmark data set for the mechanical properties of double-stranded DNA and RNA under torsional constraint
Data in Brief 30:105404 (2020)
[PDF] - Hana Dohnalová, Tomáš Dršata, Jiří Šponer, Martin Zacharias, Jan Lipfert*, Filip Lankaš*
Compensatory Mechanisms in Temperature Dependence of DNA Double Helical Structure: Bending and Elongation
Journal of Chemical Theory and Computation, doi.org/10.1021/acs.jctc.0c00037 (2020) (*Joint corresponding authorship)
[PDF][Supplementary information PDF] - Katharina Ott, Linda Martini, Jan Lipfert, and Ulrich Gerland
Dynamics of the Buckling Transition in Double-Stranded DNA and RNA
Biophys. J. 118:1690–1701 (2020)
[PDF] - Shan Zhao, Mihail Ivilinov Todorov, Ruiyao Cai, Rami AI -Maskari, Hanno Steinke, Elisabeth Kemter, Hongcheng Mai, Zhouyi Rong, Martin Warmer, Karen Stanic, Oliver Schoppe, Johannes Christian Paetzold, Benno Gesierich, Milagros N. Wong, Tobias B. Huber, Marco Duering, Oliver Thomas Bruns, Bjoern Menze, Jan Lipfert, Victor G. Puelles, Eckhard Wolf, Ingo Bechmann, and Ali Ertürk
Cellular and Molecular Probing of Intact Transparent Human Organs
Cell 180:796–812 (2020)
[PDF] - Aidin Lak, Tamara Kahmann, Simon J. Schaper, Jaroslava Obel, Frank Ludwig, Peter Müller-Buschbaum, and Jan Lipfert
The Dissociation Rate of Acetylacetonate Ligands Governs the Size of Ferrimagnetic Zinc Ferrite Nanocubes
ACS Appl Mater Interfaces 12:217-226 (2020)
[PDF][Supplementary information PDF]
2019
- Abhijeet Pataskar, Willem Vanderlinden, Johannes Emmerig, Aditi Singh, Jan Lipfert, and Vijay K. Tiwari
Deciphering the Gene Regulatory Landscape Encoded in DNA Biophysical Features
iScience 21:638–649 (2019)
[PDF][Supplementary information PDF] - Willem Vanderlinden, Tine Brouns, Philipp U. Walker, Pauline Kolbeck, Lukas Milles, Wolfgang Ott, Philipp Nickels, Zeger Debyser, and Jan Lipfert
The Free Energy Landscape of Retroviral Integration
Nature Communications 10:4738 (2019)
[PDF][Supplementary information PDF] - Achim Löf, Philipp U. Walker, Steffen M. Sedlak, Sophia Gruber, Tobias Obser, Maria A. Brehm, Martin Benoit, Jan Lipfert
Multiplexed protein force spectroscopy reveals equilibrium protein folding dynamics and the low-force response of von Willebrand factor
Proc. Natl. Acad. Sci. U.S.A. 116:18798-18807 (2019)
[PDF][Supplementary information PDF] - Willem Vanderlinden, Pauline J. Kolbeck, Wout Frederickx, Sebastian F. Konrad, Thomas Nicolaus, Carola Lampe, Alexander S. Urban, Cécile Moucheronc, and Jan Lipfert
Ru(TAP)32+ uses multivalent binding to accelerate and constrain photo-adduct formation on DNA
Chem. Commun. 55(60):8764-8767 (2019)
[Cover][PDF][Supplementary information PDF] - Jan Lipfert
Halliday Physik (book review, in German)
Physik in unserer Zeit 50:48 (2019)
[PDF]
2018
- Tine Brouns, Herlinde De Keersmaecker, Sebastian Konrad, Noriyuki Kodera, Toshio Ando, Jan Lipfert*, Steven De Feyter*, Willem Vanderlinden*
Free Energy Landscape and Dynamics of Supercoiled DNA by High-Speed Atomic Force Microscopy
ACS Nano 12:11907−11916 (2018) (*Joint corresponding authorship)
[PDF][Supplementary information PDF] - Miloš T. Ivanović, Linda K. Bruetzel, Roman Shevchuk, Jan Lipfert, and Jochen S. Hub
Quantifying the influence of the ion cloud on SAXS profiles of charged proteins
Phys. Chem. Chem. Phys., 20(41):26351-26361 (2018)
[PDF][Supplementary information PDF] - Philipp U. Walker, Willem Vanderlinden, and Jan Lipfert
Dynamics and Energy Landscape of DNA Plectoneme Nucleation
Phys. Rev. E 0424121-13 (2018)
[PDF][Supplementary information PDF] - Franziska Kriegel, Christian Matek, Tomas Drsata, Klara Kulenkampff, Sophie Tschirpke, Martin Zacharias, Filip Lankas*, and Jan Lipfert*
The Temperature Dependence of the Helical Twist of DNA
Nucleic Acids Res. 46(15):7998-8009 (2018) (*Joint corresponding authorship)
[PDF][Supplementary information PDF] - Thomas Zettl, Rebecca S. Mathew, Xuesong Shi, Sebastian Doniach, Daniel Herschlag, Pehr A.B. Harbury, Jan Lipfert
Gold Nanocrystal Labels Provide a Sequence-to-3D Structure Map in SAXS Reconstructions
Science Advances 4:eaar4418 (2018)
[PDF][Supplementary information PDF] - Thomas Zettl, Rhiju Das, Pehr A.B. Harbury*, Daniel Herschlag*, Jan Lipfert*, Rebecca S. Mathew, Xuesong Shi
Recording and Analyzing Nucleic Acid Distance Distributions with X-ray Scattering Interferometry (XSI)
Current Protocols e54 (2018) (*Joint corresponding authorship)
[PDF] - Franziska Kriegel, Willem Vanderlinden, Thomas Nicolaus, Angelika Kardinal, and Jan Lipfert
Measuring Single-Molecule Twist and Torque in Multiplexed Magnetic Tweezers
Methods Mol. Biol. 1814:75-98 (2018)
[PDF] - Linda K. Bruetzel, Philipp Walker, Thomas Gerling, Hendrik Dietz, and Jan Lipfert
Time-Resolved Small-Angle X-Ray Scattering Reveals Millisecond Transitions of a DNA Origami Switch
Nano Letters 18:2672-2676 (2018)
[PDF][Supplementary information PDF] - Maarten M. van Oene†, Seungkyu Ha†, Tessa Jager, Mina Lee, Francesco Pedaci, Jan Lipfert*, and Nynke H. Dekker*
Quantifying the Precision of Single-Molecule Torque and Twist Measurements Using Allan Variance
Biophys. J. 114:1970–1979 (2018) (†Authors contributed equally; *Joint corresponding authorship)
[Article with supplementary information PDF] - Miloš T. Ivanović, Linda K. Bruetzel, Jan Lipfert*, and Jochen S. Hub*
Temperature-dependent atomic models of detergent micelles refined against small-angle X-ray scattering data
Angewandte Chemie 57 (2018) (*Joint corresponding authorship)
[PDF][Supplementary information PDF] - Nadine Harrer†, Christina E.M. Schindler†, Linda K. Bruetzel, Ignasi Forné, Johanna Ludwigsen, Axel Imhof, Martin Zacharias, Jan Lipfert*, Felix Mueller-Planitz*
Structural architecture of the nucleosome remodeler ISWI determined from cross-linking, mass spectrometry, SAXS and modeling
Structure 26:1-13 (2018) (†Authors contributed equally; *Joint corresponding authorship)
[PDF][Supplementary information PDF]
2017
- Sabrina Simoncelli*, Samuel Johnson, Franziska Kriegel, Jan Lipfert*, and Jochen Feldmann
Stretching and heating single DNA molecules with optically trapped gold-silica Janus particles
ACS Photonics 4:2843–2851 (*Joint corresponding authorship)
[PDF][Supplementary information PDF] - Stefanos K. Nomidis, Franziska Kriegel, Willem Vanderlinden, Jan Lipfert, and Enrico Carlon
Twist-Bend Coupling and the Torsional Response of Double-Stranded DNA
Phys. Rev. Lett. 118:2178011-6 (2017)
[PDF][Supplementary information PDF] - Franziska Kriegel, Niklas Ermann, Ruaridh Forbes, David Dulin, Nynke H. Dekker, and Jan Lipfert
Probing the salt dependence of the torsional stiffness of DNA by multiplexed magnetic torque tweezers
Nucleic Acids Res. 45:5920-5929 (2017)
[PDF][Supplementary information PDF] - Steffen M. Sedlak, Linda K. Bruetzel, and Jan Lipfert
Quantitative Evaluation of Statistical Errors in Small-Angle X-Ray Scattering Measurements
J. Appl.Cryst. 50:621–630 (2017)
[PDF][Supplementary information PDF] - Maarten M. van Oene, Laura E. Dickinson, Bronwen Cross, Francesco Pedaci, Jan Lipfert, and Nynke H. Dekker
Applying torque to the Escherichia coli flagellar motor using magnetic tweezers
Scientific Reports 7:43285 (2017)
[PDF][Supplementary information PDF] - Franziska Kriegel, Niklas Ermann, and Jan Lipfert
Probing the Mechanical Properties, Conformational Changes, and Interactions of Nucleic Acids with Magnetic Tweezers
J. Struct. Biol. 197:26-36 (2017)
[PDF]
2016
- Linda K. Bruetzel, Thomas Gerling, Steffen M. Sedlak, Philipp U. Walker, Wenjun Zheng, Hendrik Dietz, and Jan Lipfert
Conformational Changes and Flexibility of DNA Devices Observed by Small-Angle X-Ray Scattering
Nano Letters 16:4871-9 (2016)
[PDF][Supplementary information PDF] - Thomas Zettl, Rebecca S. Mathew, Sönke Seifert, Sebastian Doniach, Pehr A.B. Harbury, and Jan Lipfert
Absolute Intra-Molecular Distance Measurements with Ångström-Resolution using Anomalous Small-Angle X-ray Scattering
Nano Letters 16:5353-7 (2016)
[Cover][PDF][Supplementary information PDF] - Jochen P. Müller, Achim Löf, Salomé Mielke, Tobias Obser, Linda Bruetzel, Willem Vanderlinden, Jan Lipfert, Reinhard Schneppenheim, and Martin Benoit
pH-Dependent Interactions in Dimers Govern Mechanics and Structure of von Willebrand Factor
Biophys. J. 111:321-322 (2016)
[PDF with Supplement] - Linda K. Bruetzel, Stefan Fischer, Annalena Salditt, Steffen Sedlak, Bert Nickel, and Jan Lipfert
A Mo-Anode-Based In-House Source for Small-Angle X-Ray Scattering Measurements of Biological Macromolecules
Rev. Sci. Instrum. 87:025103 (2016)
[PDF] - Jochen P. Müller, Salomé Mielke, Achim Löf, Tobias Obser, Christof Beer, Linda Bruetzel, Diana A. Pippig, Willem Vanderlinden, Jan Lipfert, Reinhard Schneppenheim, and Martin Benoit
Force sensing by the vascular protein von Willebrand Factor is tuned by a strong intermonomer interaction
Proc. Natl. Acad. Sci. U.S.A. 113:1208-13 (2016)
[PDF with Supplement]
2015
- Magdalena Gebala, George M. Giambasu, Jan Lipfert, Namita Bisaria, Steve Bonilla, Guangchao Li, Darrin M. York, and Daniel Herschlag
Cation-Anion Interactions within the Nucleic Acid Ion Atmosphere Revealed by Ion Counting Studies
J. Am. Chem. Soc. 137:14705-15 (2015)
[PDF][Supplementary information PDF] - David Dulin, Thijs Cui, Jelmer Cnossen, Margreet W. Docter, Jan Lipfert, and Nynke H. Dekker
High Spatiotemporal Resolution Magnetic Tweezers for Single-Molecule Force Spectroscopy: Calibration and Applications to DNA Dynamics
Biophys. J. 109:2113–2125 (2015)
[PDF] - Korbinian Liebl, Tomas Drsata, Filip Lankas, Jan Lipfert, and Martin Zacharias
Explaining the striking difference in twist-stretch coupling between DNA and RNA: A comparative molecular dynamics analysis
Nucleic Acids Res. 43:10143-56 (2015)
[PDF][Supplementary information PDF] - Jan Lipfert* and Nynke H. Dekker*
De RNA-helix lijkt niet altijd op die van DNA (in Dutch)
Nederlands Tijdschrift voor Natuurkunde 6:224-227 (2015) (*Joint corresponding authorship)
[PDF] - Maarten M. van Oene, Laura E. Dickinson, Francesco Pedaci, Mariana Köber, David Dulin, Jacob W.J. Kerssemakers, Jan Lipfert*, and Nynke H. Dekker*
Biological Magnetometry: Torque on Superparamagnetic Beads in Magnetic Fields
Phys. Rev. Lett. 114:218301-6 (2015) (*Joint corresponding authorship)
[PDF][Supplementary information PDF] - Rifka Vlijm, Mina Lee, Jan Lipfert, Alexandra Lusser, Cees Dekker, and Nynke H. Dekker
Nucleosome assembly dynamics involve spontaneous fluctuations in the handedness of tetrasomes
Cell Reports 10:1-10 (2015)
[PDF] - Jan Lipfert, Maarten M. van Oene, Mina Lee, Francesco Pedaci, and Nynke H. Dekker
Torque spectroscopy for the study of rotary motion in biological systems
Chemical Reviews 115:1449-74 (2015)
[Cover][PDF]
2014
- Zhongbo Yu, David Dulin, Jelmer Cnossen, Mariana Köber, Maarten van Oene, Orkide Ordu, Bojk Berghuis, Jan Lipfert, and Nynke H. Dekker
A force calibration standard for magnetic tweezers
Rev. Sci. Instrum. 85:123114 (2014)
[PDF] - Jan Lipfert, Gary M. Skinner, Johannes Keegstra, Toivo Hensgens, Tessa Jager, Mariana Köber, Zhongbo Yu, Serge Donkers, Fang-Chieh Chou, Rhiju Das, and Nynke H. Dekker
Double-Stranded RNA under Force and Torque: Similarities to and Striking Differences from Double- Stranded DNA
Proc. Natl. Acad. Sci. U.S.A. 111:15408-13 (2014)
[PDF][Supplementary information PDF] - Ryan Oliver, Jan Lipfert, Daniel Fox, Ryan Lo, Justin Kim, Sebastian Doniach, and Linda Columbus
Tuning micelle dimensions and properties with binary surfactant mixtures
Langmuir 30:13353-61 (2014)
[PDF][Supplementary information PDF] - Fang-Chieh Chou, Jan Lipfert, and Rhiju Das
Blind predictions of DNA and RNA tweezers experiments with force and torque
PLoS Comput. Biol. 10:e1003756 (2014)
[PDF] - Jan Lipfert, Mina Lee, Orkide Ordu, Jacob W.J. Kerssemakers, and Nynke H. Dekker
Magnetic tweezers for the measurement of twist and torque
J. Vis. Exp. 19:87 (2014)
[PDF] - Willem Vanderlinden, Jan Lipfert, Jonas Demeulemeester, Zeger Debyser, and Steven De Feyter
Structure, mechanics, and binding mode heterogeneity of LEDGF/p75-DNA nucleoprotein complexes as revealed by scanning force microscopy
Nanoscale 6:4611-9 (2014)
[PDF][Supplementary information PDF] - Jan Lipfert, Sebastian Doniach, Rhiju Das, and Daniel Herschlag
Understanding Nucleic Acid-Ion Interactions
Annual Review of Biochemistry 83:813-41 (2014)
[PDF]
2013
- Mina Lee, Jan Lipfert, Humberto Sanchez, Claire Wyman, and Nynke H. Dekker
Structural and torsional properties of the RAD51-dsDNA nucleoprotein filaments
Nucleic Acids Res. 41:7023-30 (2013)
[Cover][PDF][Supplementary information PDF] - Ryan C. Oliver, Jan Lipfert, Daniel A. Fox, Ryan H. Lo, Sebastian Doniach, and Linda Columbus
Dependence of micelle size and shape on detergent alkyl chain length and head group
PLOS ONE 8:62488 (2013)
[PDF] - David Dulin, Jan Lipfert, M. Charl Moolman, and Nynke H. Dekker
Studying genomic processes at the single-molecule level: introducing the tools and applications
Nature Reviews Genetics 14:9-22 (2013)
[Cover][PDF]
2012
- Adelene Y.L. Sim, Jan Lipfert, Daniel Herschlag, and Sebastian Doniach
Salt dependence of the radius of gyration and flexibility of single-stranded DNA in solution probed by small-angle x-ray scattering
Phys. Rev. E 86:021901 (2012)
[PDF][Supplementary information PDF] - Xander Janssen†, Jan Lipfert†, Tessa Jager, Renier Daudey, and Nynke H. Dekker
Electromagnetic torque tweezers: a versatile approach for measurement of single-molecule twist and torque
Nano Lett. 12:3634-9 (2012) (†Authors contributed equally)
[PDF][Supplementary information PDF] - Sebastian Doniach and Jan Lipfert
Small and wide angle X-ray scattering of biological macromolecules and their complexes in solution
Comprehensive Biophysics 1:376-397 (2012)
[PDF]
2011
- Jan Lipfert†, Jacob W.J. Kerssemakers†, Maylon Rojer, and Nynke H. Dekker
A method to track rotational motion for use in single-molecule biophysics
Rev. Sci. Instrum. 82:103707 (2011) (†Authors contributed equally)
[PDF] - Jan Lipfert†, Matthew Wiggin†, Jacob W.J. Kerssemakers, Francesco Pedaci, and Nynke H. Dekker
Freely orbiting magnetic tweezers to directly monitor changes in the twist of nucleic acids
Nature Communications 2:439 (2011) (†Authors contributed equally)
[PDF][Supplementary information PDF]
See also:
Corrigendum: Freely orbiting magnetic tweezers to directly monitor changes in the twist of nucleic acids
Nature Communications 6:7192 (2015)
[PDF]
2010
- Jan Lipfert, Jacob W.J. Kerssemakers, Tessa Jager, and Nynke H. Dekker
Magnetic torque tweezers: measuring torsional stiffness in DNA and RecA-DNA filaments
Nature Methods 7:977-80 (2010)
[PDF][Supplementary information PDF] - Jan Lipfert, Sven Klijnhout, and Nynke H. Dekker
Torsional sensing of small-molecule binding using magnetic tweezers
Nucleic Acids Res. 38:7122-32 (2010)
[PDF] - Aartjan J. teVelthuis, Jacob W.J. Kerssemakers, Jan Lipfert, and Nynke H. Dekker
Quantitative guidelines for force calibration through spectral analysis of magnetic tweezers data
Biophys. J. 99:1292-302 (2010)
[PDF] - Jan Lipfert†, Adelene Y.L. Sim†, Daniel Herschlag, and Sebastian Doniach
Dissecting electrostatic screening, specific ion binding, and ligand binding in an energetic model for glycine riboswitch folding
RNA 16:708-19 (2010) (†Authors contributed equally)
[PDF] - Mona Ali, Jan Lipfert, Sönke Seifert, Daniel Herschlag, and Sebastian Doniach
The ligand-free state of the TPP riboswitch: a partially folded RNA structure
J. Mol. Biol. 396:153-65 (2010)
[PDF] - S. Menze, C. Menze, J. Lipfert, B. Menze, and G. Harsch
Der Vorfahr aus der Bronzezeit (in German)
Praxis der Naturwissenschaften - Chemie in der Schule 5:6 (2010)
2009
- Vincent B. Chu, Jan Lipfert, Yu Bai, Vijay S. Pande, Sebastian Doniach, and Daniel Herschlag
Do conformational biases of simple helical junctions influence RNA folding stability and specificity?
RNA 15:2195-205 (2009)
[PDF] - Jan Lipfert, Xiaomin Hao, and Nynke H. Dekker
Quantitative modeling and optimization of magnetic tweezers
Biophys. J. 96:5040-9 (2009)
[PDF] [Supplementary information PDF] [Example calculations] - Jan Lipfert, Daniel A. Koster, Igor D. Vilfan, Susanne Hage, and Nynke H. Dekker
Single-molecule magnetic tweezers studies of type IB topoisomerases
Methods Mol. Biol. 582:71-89 (2009)
[PDF] - Igor D. Vilfan, Jan Lipfert, Daniel A. Koster, Serge G. Lemay, and Nynke H. Dekker
Magnetic tweezers for single-molecule experiments
Handbook of Single-Molecule Biophysics, Springer (2009)
[PDF] - Linda Columbus, Jan Lipfert, K. Jambunathan, Daniel A. Fox, Adelene Y.L. Sim, Sebastian Doniach, and Scott A. Lesley
Mixing and matching detergents for membrane protein NMR structure determination
J. Am. Chem. Soc. 131:7320-6 (2009)
[PDF] [Supplementary information PDF] - Jan Lipfert, Daniel Herschlag, and Sebastian Doniach
Riboswitch conformations revealed by small-angle X-ray scattering
Methods Mol. Biol. 540:141-59 (2009)
[PDF] - Sebastian Doniach and Jan Lipfert
Use of small angle X-ray scattering (SAXS) to characterize conformational states of functional RNAs
Methods Enzymol. 469:237-51 (2009)
[PDF]
2008
- Vincent B. Chu, Yu Bai, Jan Lipfert, Daniel Herschlag, and Sebastian Doniach
A repulsive field: advances in the electrostatics of the ion atmosphere
Curr. Opin. Chem. Biol. 12:619-25 (2008)
[PDF] - JanLipfert†,JonathanOuellet†,DavidG.Norman,SebastianDoniach,andDavidM.J.Lilley
The complete VS ribozyme in solution studied by small-angle X-ray scattering
Structure 16:1357-67 (2008) (†Authors contributed equally)
[PDF] [Supplementary information PDF] - Yu Bai, Vincent B. Chu, Jan Lipfert, Vijay S. Pande, Daniel Herschlag, and Sebastian Doniach
Critical assessment of nucleic acid electrostatics via experimental and computational investigation of an unfolded state ensemble
J. Am. Chem. Soc. 130:12334-41 (2008)
[PDF] [Supplementary information PDF] - Benjamin J. Spink, Sivaraj Sivaramakrishnan, Jan Lipfert, Sebastian Doniach, and James A. Spudich
Long single alpha-helical tail domains bridge the gap between structure and function of myosin VI
Nature Struct. Mol. Biol. 15:591-7 (2008)
[PDF] [Supplementary information PDF]
2007
- Yu Bai, Kevin Travers, Vincent B. Chu, Jan Lipfert, Daniel Herschlag, and Sebastian Doniach
Quantitative and comprehensive decomposition of the ion atmosphere around nucleic acids
J. Am. Chem. Soc. 129:14981-8 (2007)
[PDF] [Supplementary information PDF] - Jan Lipfert, Linda Columbus, Vincent B. Chu, Scott A. Lesley, and Sebastian Doniach
Size and shape of detergent micelles determined by small-angle X-ray scattering
J. Phys. Chem. B. 111:12427-38 (2007)
[PDF] - Vincent B. Chu, Yu Bai, Jan Lipfert, Daniel Herschlag, and Sebastian Doniach
Evaluation of ion binding to DNA duplexes using a size-modified Poisson-Boltzmann theory
Biophys. J. 93:3202-9 (2007)
[PDF] - Jan Lipfert and Sebastian Doniach
Small-angle X-ray scattering from RNA, proteins, and protein complexes
Annual Reviews Biophys. Biomol. Struct. 36:307-27 (2007)
[PDF] - Jan Lipfert, Rhiju Das, Vincent B. Chu, Madhuri Kudaravalli, Nathan Boyd, Daniel Herschlag, and Sebastian Doniach
Structural transitions and thermodynamics of a glycine-dependent riboswitch from Vibrio cholerae
J. Mol. Biol. 365:1393-406 (2007)
[PDF] [Supplementary information PDF] - Jan Lipfert, Vincent B. Chu, Yu Bai, Daniel Herschlag, and Sebastian Doniach
Low resolution models for nucleic acids from small-angle X-ray scattering with applications to electrostatic modeling
J. Appl. Cryst. 40:235-239 (2007)
[PDF] - Jan Lipfert, Linda Columbus, Vincent B. Chu, and Sebastian Doniach
Analysis of small-angle X-ray scattering data of protein-detergent complexes by singular value decomposition
J. Appl. Cryst. 40:229-234 (2007)
[PDF]
2006
- Gautam Dantas, Alexander L. Watters, Bradley Lunde, Ziad Eletr, Nancy Isern, Jan Lipfert, Sebastian Doniach, Brian Kuhlman, Barry L. Stoddard, Gabriele Varani, and David Baker
Mis-translation of a computationally designed protein yields an exceptionally stable homodimer: implications for protein engineering and evolution
J. Mol. Biol. 362:1004-1024 (2006)
[PDF] [Supplementary information 1] [Supplementary information 2] - Jan Lipfert, Ian S. Millett, Sönke Seifert, and Sebastian Doniach
A sample holder for small-angle X-ray scattering static and flow cell measurements
Rev. Sci. Instrum. 77:046108 (2006)
[PDF] [Supplementary information PDF] - Linda Columbus, Jan Lipfert, Heath Klock, Ian S. Millett, Sebastian Doniach, and Scott Lesley
Expression, purification, and characterization of Thermotoga maritima membrane proteins for structure determination
Protein Sci. 15:1-15 (2006)
[PDF] [Supplementary information PDF]
2005
- Bojan Zagrovic, Jan Lipfert, Erik J. Sorin, Ian S. Millett, Wilfred F. van Gunsteren, Sebastian Doniach, and Vijay S. Pande
Unusual compactness of a polyproline type II structure
Proc. Natl. Acad. Sci. U.S.A. 102:11698-11703 (2005)
[PDF] - Jan Lipfert, Joel Franklin, Fang Wu, and Sebastian Doniach
Protein misfolding and amyloid formation for the peptide GNNQQNY from yeast prion protein Sup35: simulation by reaction path annealing
J. Mol. Biol. 349:648-658 (2005)
[PDF] [Supplementary information PDF]
2004
- Jan Lipfert, Jorge Llano, and Leif A. Eriksson
Radiation-Induced Damage in Serine Phosphate - Insights into a Mechanism for Direct DNA Strand Breakage
J. Phys. Chem. B 108:8036-8042 (2004)
[PDF]