Thorben Cordes - Publications

Affiliations: 
LMU Munich, München, Bayern, Germany 

72 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2022 Harris PD, Narducci A, Gebhardt C, Cordes T, Weiss S, Lerner E. Multi-parameter photon-by-photon hidden Markov modeling. Nature Communications. 13: 1000. PMID 35194038 DOI: 10.1038/s41467-022-28632-x  0.506
2022 Zhang L, Isselstein M, Köhler J, Eleftheriadis N, Huisjes N, Guirao M, Narducci A, Smit J, Stoffels J, Harz H, Leonhardt H, Herrmann A, Cordes T. Linker Molecules Convert Commercial Fluorophores into Tailored Functional Probes during Bio-labeling. Angewandte Chemie (International Ed. in English). PMID 35146855 DOI: 10.1002/anie.202112959  0.304
2021 Eiring P, McLaughlin R, Matikonda SS, Han Z, Grabenhorst L, Helmerich DA, Meub M, Beliu G, Luciano M, Bandi V, Zijlstra N, Shi ZD, Tarasov S, Swenson R, Tinnefeld P, ... ... Cordes T, et al. Targetable conformationally restricted cyanines enable photon-count limited applications. Angewandte Chemie (International Ed. in English). PMID 34606673 DOI: 10.1002/anie.202109749  0.609
2021 Gebhardt C, Lehmann M, Reif MM, Zacharias M, Gemmecker G, Cordes T. Molecular and Spectroscopic Characterization of Green and Red Cyanine Fluorophores from the Alexa Fluor and AF Series*. Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry. PMID 34185946 DOI: 10.1002/cphc.202000935  0.321
2021 Ploetz E, Schuurman-Wolters GK, Zijlstra N, Jager AW, Griffith DA, Guskov A, Gouridis G, Poolman B, Cordes T. Structural and biophysical characterization of the tandem substrate-binding domains of the ABC importer GlnPQ. Open Biology. 11: 200406. PMID 33823661 DOI: 10.1098/rsob.200406  0.771
2021 Lerner E, Barth A, Hendrix J, Ambrose B, Birkedal V, Blanchard SC, Börner R, Sung Jung H, Cordes T, Craggs TD, Deniz AA, Diao J, Fei J, Gonzalez RL, Gopich IV, et al. FRET-based dynamic structural biology: Challenges, perspectives and an appeal for open-science practices. Elife. 10. PMID 33779550 DOI: 10.7554/eLife.60416  0.758
2020 Tassis K, Vietrov R, de Koning M, de Boer M, Gouridis G, Cordes T. Single-molecule studies of conformational states and dynamics in the ABC importer OpuA. Febs Letters. PMID 33314056 DOI: 10.1002/1873-3468.14026  0.32
2020 Isselstein M, Zhang L, Glembockyte V, Brix O, Cosa G, Tinnefeld P, Cordes T. Self-Healing Dyes - Keeping The Promise? The Journal of Physical Chemistry Letters. PMID 32401520 DOI: 10.1021/Acs.Jpclett.9B03833  0.621
2019 Mächtel R, Narducci A, Griffith DA, Cordes T, Orelle C. An integrated transport mechanism of the maltose ABC importer. Research in Microbiology. PMID 31560984 DOI: 10.1016/J.Resmic.2019.09.004  0.319
2019 de Boer M, Gouridis G, Muthahari YA, Cordes T. Single-Molecule Observation of Ligand Binding and Conformational Changes in FeuA. Biophysical Journal. PMID 31537314 DOI: 10.1016/J.Bpj.2019.08.005  0.344
2019 Gouridis G, Hetzert B, Kiosze-Becker K, de Boer M, Heinemann H, Nürenberg-Goloub E, Cordes T, Tampé R. ABCE1 Controls Ribosome Recycling by an Asymmetric Dynamic Conformational Equilibrium. Cell Reports. 28: 723-734.e6. PMID 31315050 DOI: 10.1016/J.Celrep.2019.06.052  0.386
2019 Smit JH, Li Y, Warszawik EM, Herrmann A, Cordes T. ColiCoords: A Python package for the analysis of bacterial fluorescence microscopy data. Plos One. 14: e0217524. PMID 31216308 DOI: 10.1371/Journal.Pone.0217524  0.366
2019 de Boer M, Gkouridis G, Vietrov R, Begg SL, Schuurman-Wolters GK, Husada F, Eleftheriadis N, Poolman B, McDevitt CA, Cordes T. Conformational and dynamical plasticity in substrate-binding proteins underlies selective transport in ABC importers. Elife. 8. PMID 30900991 DOI: 10.7554/Elife.44652  0.321
2019 Boer Md, Gouridis G, Vietrov R, Begg SL, Schuurman-Wolters GK, Husada F, Eleftheriadis N, Poolman B, McDevitt CA, Cordes T. Author response: Conformational and dynamic plasticity in substrate-binding proteins underlies selective transport in ABC importers Elife. DOI: 10.7554/Elife.44652.037  0.301
2019 Velde JHMvd, Smit JH, Hebisch E, Punter M, Cordes T. Self-healing dyes for super-resolution fluorescence microscopy Journal of Physics D. 52: 34001. DOI: 10.1088/1361-6463/Aae752  0.395
2018 Smit JH, van der Velde JHM, Huang J, Trauschke V, Henrikus SS, Chen S, Eleftheriadis N, Warszawik EM, Herrmann A, Cordes T. On the impact of competing intra- and intermolecular triplet-state quenching on photobleaching and photoswitching kinetics of organic fluorophores. Physical Chemistry Chemical Physics : Pccp. PMID 30499568 DOI: 10.1039/C8Cp05063E  0.449
2018 Hellenkamp B, Schmid S, Doroshenko O, Opanasyuk O, Kühnemuth R, Adariani SR, Ambrose B, Aznauryan M, Barth A, Birkedal V, Bowen ME, Chen H, Cordes T, Eilert T, Fijen C, et al. Publisher Correction: Precision and accuracy of single-molecule FRET measurements-a multi-laboratory benchmark study. Nature Methods. PMID 30327572 DOI: 10.1038/S41592-018-0193-X  0.743
2018 Husada F, Bountra K, Tassis K, de Boer M, Romano M, Rebuffat S, Beis K, Cordes T. Conformational dynamics of the ABC transporter McjD seen by single-molecule FRET. The Embo Journal. PMID 30237313 DOI: 10.15252/Embj.2018100056  0.396
2018 Hellenkamp B, Schmid S, Doroshenko O, Opanasyuk O, Kühnemuth R, Rezaei Adariani S, Ambrose B, Aznauryan M, Barth A, Birkedal V, Bowen ME, Chen H, Cordes T, Eilert T, Fijen C, et al. Precision and accuracy of single-molecule FRET measurements-a multi-laboratory benchmark study. Nature Methods. 15: 669-676. PMID 30171252 DOI: 10.1038/S41592-018-0085-0  0.767
2018 Lerner E, Cordes T, Ingargiola A, Alhadid Y, Chung S, Michalet X, Weiss S. Toward dynamic structural biology: Two decades of single-molecule Förster resonance energy transfer. Science (New York, N.Y.). 359. PMID 29348210 DOI: 10.1126/Science.Aan1133  0.585
2018 Graupner FF, Herzog TT, Rott F, Oesterling S, de Vivie-Riedle R, Cordes T, Zinth W. Photoisomerization of hemithioindigo compounds: Combining solvent- and substituent- effects into an advanced reaction model Chemical Physics. 515: 614-621. DOI: 10.1016/J.Chemphys.2018.07.043  0.688
2018 Mächtel R, Gebhardt C, Cordes T. Konformationsbewegungen von aktiven Membrantransportern Biospektrum. 24: 495-497. DOI: 10.1007/S12268-018-0945-2  0.412
2017 Jazi AA, Ploetz E, Arizki M, Dhandayuthapani B, Waclawska I, Krämer R, Ziegler C, Cordes T. Caging and Photoactivation in Single-Molecule Förster Resonance Energy Transfer Experiments. Biochemistry. PMID 28362086 DOI: 10.1021/Acs.Biochem.6B00916  0.802
2016 Robb NC, Te Velthuis AJ, Wieneke R, Tampé R, Cordes T, Fodor E, Kapanidis AN. Single-molecule FRET reveals the pre-initiation and initiation conformations of influenza virus promoter RNA. Nucleic Acids Research. 44: 10304-10315. PMID 27694620 DOI: 10.1093/Nar/Gkw884  0.577
2016 Ploetz E, Lerner E, Husada F, Roelfs M, Chung S, Hohlbein J, Weiss S, Cordes T. Förster resonance energy transfer and protein-induced fluorescence enhancement as synergetic multi-scale molecular rulers. Scientific Reports. 6: 33257. PMID 27641327 DOI: 10.1038/Srep33257  0.804
2016 Lerner E, Ploetz E, Hohlbein J, Cordes T, Weiss S. A Quantitative Theoretical Framework For PIFE-FRET. The Journal of Physical Chemistry. B. PMID 27184889 DOI: 10.1021/Acs.Jpcb.6B03692  0.797
2016 van der Velde JH, Oelerich J, Huang J, Smit JH, Aminian Jazi A, Galiani S, Kolmakov K, Guoridis G, Eggeling C, Herrmann A, Roelfes G, Cordes T. A simple and versatile design concept for fluorophore derivatives with intramolecular photostabilization. Nature Communications. 7: 10144. PMID 26751640 DOI: 10.1038/Ncomms10144  0.423
2016 Kitzig S, Thilemann M, Cordes T, Rück-Braun K. Light-Switchable Peptides with a Hemithioindigo Unit: Peptide Design, Photochromism, and Optical Spectroscopy Chemphyschem. 17: 1252-1263. DOI: 10.1002/Cphc.201501050  0.325
2015 Cordes T, Moerner W, Orrit M, Needham LM, Sekatskii S, Faez S, Prabal Goswami H, Clark A, Meixner AJ, Piatkowski L, Sandoghdar V, Skinner GM, Balzarotti F, Langbein W, Novotny L, et al. Superresolution techniques, biophysics with nanostructures, and fluorescence energy transfer: general discussion. Faraday Discussions. PMID 26616426 DOI: 10.1039/C5Fd90094H  0.341
2015 Husada F, Gouridis G, Vietrov R, Schuurman-Wolters GK, Ploetz E, de Boer M, Poolman B, Cordes T. Watching conformational dynamics of ABC transporters with single-molecule tools. Biochemical Society Transactions. 43: 1041-7. PMID 26517920 DOI: 10.1042/Bst20150140  0.795
2015 van der Velde JH, Uusitalo JJ, Ugen LJ, Warszawik EM, Herrmann A, Marrink SJ, Cordes T. Intramolecular photostabilization via triplet-state quenching: design principles to make organic fluorophores "self-healing". Faraday Discussions. PMID 26449795 DOI: 10.1039/C5Fd00114E  0.435
2015 Gouridis G, Schuurman-Wolters GK, Ploetz E, Husada F, Vietrov R, de Boer M, Cordes T, Poolman B. Conformational dynamics in substrate-binding domains influences transport in the ABC importer GlnPQ. Nature Structural & Molecular Biology. 22: 57-64. PMID 25486304 DOI: 10.1038/Nsmb.2929  0.774
2015 Hell SW, Sahl SJ, Bates M, Zhuang X, Heintzmann R, Booth MJ, Bewersdorf J, Shtengel G, Hess H, Tinnefeld P, Honigmann A, Jakobs S, Testa I, Cognet L, Lounis B, ... ... Cordes T, et al. The 2015 super-resolution microscopy roadmap Journal of Physics D: Applied Physics. 48. DOI: 10.1088/0022-3727/48/44/443001  0.537
2014 van der Velde JH, Oelerich J, Huang J, Smit JH, Hiermaier M, Ploetz E, Herrmann A, Roelfes G, Cordes T. The Power of Two: Covalent Coupling of Photostabilizers for Fluorescence Applications. The Journal of Physical Chemistry Letters. 5: 3792-8. PMID 26278749 DOI: 10.1021/Jz501874F  0.804
2014 Hohlbein J, Craggs TD, Cordes T. Alternating-laser excitation: Single-molecule FRET and beyond Chemical Society Reviews. 43: 1156-1171. PMID 24037326 DOI: 10.1039/C3Cs60233H  0.439
2014 Ploetz E, Visser B, Slingenbergh W, Evers K, Martinez-Martinez D, Pei YT, Feringa BL, De Hosson JTM, Cordes T, Van Dorp WF. Selective functionalization of patterned glass surfaces Journal of Materials Chemistry B. 2: 2606-2615. DOI: 10.1039/C3Tb21763A  0.765
2013 van der Velde JH, Ploetz E, Hiermaier M, Oelerich J, de Vries JW, Roelfes G, Cordes T. Mechanism of intramolecular photostabilization in self-healing cyanine fluorophores. Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry. 14: 4084-93. PMID 24302532 DOI: 10.1002/Cphc.201300785  0.776
2013 Cordes T, Blum SA. Opportunities and challenges in single-molecule and single-particle fluorescence microscopy for mechanistic studies of chemical reactions. Nature Chemistry. 5: 993-9. PMID 24256861 DOI: 10.1038/Nchem.1800  0.416
2013 Herzog TT, Ryseck G, Ploetz E, Cordes T. The photochemical ring opening reaction of chromene as seen by transient absorption and fluorescence spectroscopy. Photochemical & Photobiological Sciences : Official Journal of the European Photochemistry Association and the European Society For Photobiology. 12: 1202-9. PMID 23598991 DOI: 10.1039/C3Pp50020A  0.793
2013 Robb NC, Cordes T, Hwang LC, Gryte K, Duchi D, Craggs TD, Santoso Y, Weiss S, Ebright RH, Kapanidis AN. The transcription bubble of the RNA polymerase-promoter open complex exhibits conformational heterogeneity and millisecond-scale dynamics: Implications for transcription start-site selection Journal of Molecular Biology. 425: 875-885. PMID 23274143 DOI: 10.1016/J.Jmb.2012.12.015  0.715
2012 Slingenbergh W, de Boer SK, Cordes T, Browne WR, Feringa BL, Hoogenboom JP, De Hosson JT, van Dorp WF. Selective functionalization of tailored nanostructures. Acs Nano. 6: 9214-20. PMID 22994624 DOI: 10.1021/Nn303571P  0.332
2012 Tinnefeld P, Cordes T. 'Self-healing' dyes: Intramolecular stabilization of organic fluorophores Nature Methods. 9: 426-427. PMID 22543371 DOI: 10.1038/Nmeth.1977  0.648
2012 Regner N, Herzog TT, Haiser K, Hoppmann C, Beyermann M, Sauermann J, Engelhard M, Cordes T, Rück-Braun K, Zinth W. Light-switchable hemithioindigo-hemistilbene-containing peptides: ultrafast spectroscopy of the Z → E isomerization of the chromophore and the structural dynamics of the peptide moiety. The Journal of Physical Chemistry. B. 116: 4181-91. PMID 22423868 DOI: 10.1021/Jp300982A  0.679
2012 Stein IH, Capone S, Smit JH, Baumann F, Cordes T, Tinnefeld P. Linking single-molecule blinking to chromophore structure and redox potentials Chemphyschem. 13: 931-937. PMID 22162072 DOI: 10.1002/Cphc.201100820  0.607
2012 Stein IH, Capone S, Smit JH, Baumann F, Cordes T, Tinnefeld P. Cover Picture: Linking Single‐Molecule Blinking to Chromophore Structure and Redox Potentials (ChemPhysChem 4/2012) Chemphyschem. 13: 881-881. DOI: 10.1002/Cphc.201290016  0.558
2011 Cordes T, Maiser A, Steinhauer C, Schermelleh L, Tinnefeld P. Mechanisms and advancement of antifading agents for fluorescence microscopy and single-molecule spectroscopy Physical Chemistry Chemical Physics. 13: 6699-6709. PMID 21311807 DOI: 10.1039/C0Cp01919D  0.625
2011 Schrader TE, Cordes T, Schreier WJ, Koller FO, Dong SL, Moroder L, Zinth W. Folding and unfolding of light-triggered β-hairpin model peptides. The Journal of Physical Chemistry. B. 115: 5219-26. PMID 21175125 DOI: 10.1021/Jp107683D  0.683
2011 Gryte K, Cordes T, Tomescu A, Hwang L, Kapanidis A. Real-Time Initial Transcription by a Multisubunit RNA Polymerase Biophysical Journal. 100: 65a. DOI: 10.1016/J.Bpj.2010.12.554  0.581
2010 Nenov A, Cordes T, Herzog TT, Zinth W, de Vivie-Riedle R. Molecular driving forces for Z/E isomerization mediated by heteroatoms: the example hemithioindigo. The Journal of Physical Chemistry. A. 114: 13016-30. PMID 21126014 DOI: 10.1021/Jp107899G  0.706
2010 Cordes T, Santoso Y, Tomescu AI, Gryte K, Hwang LC, Camará B, Wigneshweraraj S, Kapanidis AN. Sensing DNA opening in transcription using quenchable Förster resonance energy transfer Biochemistry. 49: 9171-9180. PMID 20818825 DOI: 10.1021/Bi101184G  0.613
2010 Vogelsang J, Steinhauer C, Forthmann C, Stein IH, Person-Skegro B, Cordes T, Tinnefeld P. Make them blink: Probes for super-resolution microscopy Chemphyschem. 11: 2475-2490. PMID 20632356 DOI: 10.1002/Cphc.201000189  0.652
2010 Cordes T, Vogelsang J, Anaya M, Spagnuolo C, Gietl A, Summerer W, Herrmann A, Müllen K, Tinnefeld P. Single-molecule redox blinking of perylene diimide derivatives in water. Journal of the American Chemical Society. 132: 2404-9. PMID 20121094 DOI: 10.1021/Ja9099714  0.648
2010 Vogelsang J, Cordes T, Forthmann C, Steinhauer C, Tinnefeld P. Intrinsically resolution enhancing probes for confocal microscopy Nano Letters. 10: 672-679. PMID 20058908 DOI: 10.1021/Nl903823S  0.639
2010 Cordes T, Strackharn M, Stahl SW, Summerer W, Steinhauer C, Forthmann C, Puchner EM, Vogelsang J, Gaub HE, Tinnefeld P. Resolving single-molecule assembled patterns with superresolution blink-microscopy. Nano Letters. 10: 645-51. PMID 20017533 DOI: 10.1021/Nl903730R  0.63
2010 Regner N, Herzog TT, Haiser K, Hoppmann C, Sauermann J, Rück-Braun K, Engelhard M, Cordes T, Zinth W. Light-switchable HTI-peptides: Ultrafast structural changes and coupling between the electronically excited chromophore and amide groups Optics Infobase Conference Papers 0.637
2009 Böttcher C, Zeyat G, Ahmed SA, Irran E, Cordes T, Elsner C, Zinth W, Rueck-Braun K. Synthesis of novel photochromic pyrans via palladium-mediated reactions. Beilstein Journal of Organic Chemistry. 5: 25. PMID 19590750 DOI: 10.3762/Bjoc.5.25  0.657
2009 Vogelsang J, Cordes T, Forthmann C, Steinhauer C, Tinnefeid P. Controlling the fluorescence of ordinary oxazine dyes for single-molecule switching and superresolution microscopy Proceedings of the National Academy of Sciences of the United States of America. 106: 8107-8112. PMID 19433792 DOI: 10.1073/Pnas.0811875106  0.423
2009 Cordes T, Herzog TT, Malkmus S, Draxler S, Brust T, Digirolamo JA, Lees WJ, Braun M. Wavelength and solvent independent photochemistry: the electrocyclic ring-closure of indolylfulgides. Photochemical & Photobiological Sciences : Official Journal of the European Photochemistry Association and the European Society For Photobiology. 8: 528-34. PMID 19337667 DOI: 10.1039/B817627B  0.397
2009 Vogelsang J, Cordes T, Tinnefeld P. Single-molecule photophysics of oxazines on DNA and its application in a FRET switch Photochemical and Photobiological Sciences. 8: 486-496. PMID 19337662 DOI: 10.1039/B822318C  0.665
2009 Cordes T, Vogelsang J, Tinnefeld P. On the mechanism of trolox as antiblinking and antibleaching reagent Journal of the American Chemical Society. 131: 5018-5019. PMID 19301868 DOI: 10.1021/Ja809117Z  0.594
2009 Elsner C, Cordes T, Dietrich P, Zastrow M, Herzog TT, Rück-Braun K, Zinth W. Photochromic bis(thiophen-3-yl)maleimides studied with time-resolved spectroscopy. The Journal of Physical Chemistry. A. 113: 1033-9. PMID 19143542 DOI: 10.1021/Jp806945M  0.709
2009 Cordes T, Stein IH, Forthmann C, Steinhauer C, Walz M, Summerer W, Person B, Vogelsang J, Tinnefeld P. Controlling the emission of organic dyes for high sensitivity and super-resolution microscopy Optics Infobase Conference Papers. DOI: 10.1117/12.831495  0.491
2009 Cordes T, Regner N, Heinz B, Borysova E, Ryseck G, Gilch P. The complex photo-rearrangement of a heterocyclic N-oxide: Kinetics from picoseconds to minutes Journal of Photochemistry and Photobiology a: Chemistry. 206: 10-17. DOI: 10.1016/J.Jphotochem.2009.05.015  0.663
2009 Cordes T, Elsner C, Herzog TT, Hoppmann C, Schadendorf T, Summerer W, Rück-Braun K, Zinth W. Ultrafast Hemithioindigo-based peptide-switches Chemical Physics. 358: 103-110. DOI: 10.1016/J.Chemphys.2008.12.027  0.697
2009 Root C, Lederer FJ, Schrader TE, Herzog TT, Cordes T, Gilch P, Braun M. Excitation wavelength dependent pump-probe signatures of molecular crystals Applied Physics a: Materials Science and Processing. 96: 99-106. DOI: 10.1007/S00339-009-5169-3  0.654
2008 Cordes T, Malkmus S, DiGirolamo JA, Lees WJ, Nenov A, de Vivie-Riedle R, Braun M, Zinth W. Accelerated and efficient photochemistry from higher excited electronic states in fulgide molecules. The Journal of Physical Chemistry. A. 112: 13364-71. PMID 19049317 DOI: 10.1021/Jp807097W  0.689
2008 Cordes T, Schadendorf T, Priewisch B, Rück-Braun K, Zinth W. The Hammett relationship and reactions in the excited electronic state: hemithioindigo Z/E-photoisomerization. The Journal of Physical Chemistry. A. 112: 581-8. PMID 18177026 DOI: 10.1021/Jp077472L  0.675
2008 Cordes T, Schadendorf T, Rück-Braun K, Zinth W. Chemical control of Hemithioindigo-photoisomerization - Substituent-effects on different molecular parts Chemical Physics Letters. 455: 197-201. DOI: 10.1016/J.Cplett.2008.02.096  0.705
2007 Schrader TE, Schreier WJ, Cordes T, Koller FO, Babitzki G, Denschlag R, Renner C, Löweneck M, Dong SL, Moroder L, Tavan P, Zinth W. Light-triggered beta-hairpin folding and unfolding. Proceedings of the National Academy of Sciences of the United States of America. 104: 15729-34. PMID 17893334 DOI: 10.1073/Pnas.0707322104  0.673
2007 Cordes T, Heinz B, Regner N, Hoppmann C, Schrader TE, Summerer W, Rück-Braun K, Zinth W. Photochemical Z-->E isomerization of a hemithioindigo/hemistilbene omega-amino acid. Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry. 8: 1713-21. PMID 17614347 DOI: 10.1002/Cphc.200700223  0.73
2007 Koller FO, Sobotta C, Schrader TE, Cordes T, Schreier WJ, Sieg A, Gilch P. Slower processes of the ultrafast photo-isomerization of an azobenzene observed by IR spectroscopy Chemical Physics. 341: 258-266. DOI: 10.1016/J.Chemphys.2007.06.048  0.643
2006 Cordes T, Weinrich D, Kempa S, Riesselmann K, Herre S, Hoppmann C, Rück-Braun K, Zinth W. Hemithioindigo-based photoswitches as ultrafast light trigger in chromopeptides Chemical Physics Letters. 428: 167-173. DOI: 10.1016/J.Cplett.2006.07.043  0.687
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