Friedrich C. Simmel

>> Contact Information

Prof. Dr. Friedrich C. Simmel
Physics Department and ZNN/WSI
Technische Universität München
Am Coulombwall 4a
Room 2.016
85748 Garching

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Telephone:	+49 89 289 11610 (secretary)
	+49 89 289 11611 (office)
Fax:	+49 89 289 11612

>> Curriculum Vitae

Since Nov 2010	Co-Coordinator of the DFG Excellence Cluster "Nanosystems Initiative Munich"
2010	President of International Society of Nanoscale Science, Computing, and Engineering (ISNSCE)
2009	Vice-President of International Society of Nanoscale Science, Computing, and Engineering (ISNSCE)
Since Nov 2007	Full Professor for Experimental Physics (Chair of Bioelectronics) at the Technische Universität München, Garching
Feb 2006	Senior Lecturer ("Privatdozent") in Experimental Physics.
Dec 2005	Habilitation in Experimental Physics.
Oct 2005 - Feb 2006	Substitute Professor for Physical Chemistry in the Department of Chemistry and Pharmacy, Munich University.
Feb 2002 - Oct 2007	Leader of the Bio Molecular Nanoscience Group in the Nanophysics Group at the Center for NanoScience and Department of Physics at Munich University . Supported through the Emmy Noether program of the Deutsche Forschungsgemeinschaft.
Feb 2000 - Jan 2002	Postdoctoral researcher at Bell Labs, Lucent Technologies in Murray Hill, New Jersey. Research in DNA Nanotechnology as Feodor Lynen fellow of the Alexander von Humboldt foundation.
Aug 1999 - Jan 2000	Researcher in the Semiconductor Group in Munich.
Jul 1999	PhD in experimental physics.
Apr 1996 - May 1999	PhD thesis in experimental physics in the Semiconductor Group in Munich: Transport properties of quantum dots.
Feb 1996	Diploma in theoretical physics.
1994 - 1995	Diploma thesis in theoretical physics at Munich University: Quantum mechanical properties of classically nonintegrable systems.
Nov 1990 - Feb 1996	Studies in physics at Munich University.

>> Publications

>> Journal publications

66. G. P. Acuna, M. Bucher, I. Stein, C. Steinhauer, A. Kuzyk, P. Holzmeister, R. Schreiber, A. Moroz, F. D. Stefani, T. Liedl, F. C. Simmel, and P. Tinnefeld, Distance dependence of single-fluorophore quenching by gold nanoparticles studied on DNA origami, ACS Nano, doi:10.1021/nn2050483 (2012).

65. A. Bessonov, J. Takemoto, F. C. Simmel, Probing DNA-lipid membrane interactions with a lipopeptide nanopore, ACS Nano, doi: 10.1021/nn3003696 (2012).

64. A. Kuzyk, R. Schreiber, Z. Fan, G. Pardatscher, E.-M. Roller, A. Högele, F. C. Simmel, A. O. Govorov, T. Liedl, DNA-based self-assembly of chiral plasmonic nanostructures with tailored optical response, Nature 483, 311-314 (2012).

63. M. Weitz, F. C. Simmel, Synthetic in vitro transcription circuits, Transcription 3, 87-91 (2012).

62. F. C. Simmel, DNA-based assembly lines and nanofactories, Current Opinion in Biotechnology, doi:10.1016/j.copbio.2011.12.024 (2012).

61. S. Schink. S. Renner, K. Alim, V. Arnaut, F. C. Simmel, and U. Gerland, Quantitative Analysis of the Nanopore Translocation Dynamics of Simple Structured Polynucleotides, Biophysical Journal 102, 85-95 (2012).

60. R. Jungmann, M. Scheible, F. C. Simmel, Nanoscale imaging in DNA nanotechnology, WIREs Nanomedicine & Nanobiotechnology 4, 66-81 (2012).

59. M. Langecker, D. Pedone, F. C. Simmel, U. Rant, Electrophoretic time-of-flight measurements of single DNA molecules with two stacked nanopores, Nano Letters 11, 5002-5007 (2011). http://dx.doi.org/10.1021/nl2030079

58. E. Franco, E. Friedrichs, J. Kim, R. Jungmann, R. Murray, E. Winfree, F. C. Simmel, Timing molecular production and motion with a synthetic transcriptional clock, Proc. Natl. Acad. Sci. U.S.A. 108, E784-E793 (2011). DOI: 10.1073/pnas.1100060108

57. R. Jungmann, M. Scheible, A. Kuzyk, G. Pardatscher, C. E. Castro, F. C. Simmel, DNA origami-based nanoribbons: assembly, length distribution, and twist, Nanotechnology, 22, 275301 (2011). http://iopscience.iop.org/0957-4484/22/27/275301

56. Y. Krishnan and F. C. Simmel, Nucleic acid based molecular devices, Angewandte Chemie Int. Ed. 50, 3124-3156 (2011). http://dx.doi.org/10.1002/anie.200907223

55. S. Renner, A. Bessonov, F. C. Simmel, Voltage-controlled insertion of single α-hemolysin and MspA nanopores into lipid
bilayer membranes, Appl. Phys. Lett. 98, 083701 (2011). http://dx.doi.org/10.1063/1.3558902

54. S. Renner, A. Bessonov, U. Gerland, F. C. Simmel, Sequence-dependent unfolding kinetics of DNA hairpins studied by nanopore force spectroscopy, J. Phys. Cond. Mat. 22, 454119 (2010)

53. R. Jungmann, C. Steinhauer, M. Scheible, A. Kuzyk, P. Tinnefeld, F. C. Simmel, Single-Molecule Kinetics and Super-Resolution Microscopy by Fluorescence Imaging of Transient Binding on DNA Origami, Nano Letters 10, 4756-4761 (2010) http://dx.doi.org/10.1021/nl103427w

52. S. Modi, D. Bhatia, F. C. Simmel, and Y. Krishnan, Structural DNA Nanotechnology: From bases to bricks, from structure to function, Journal of Physical Chemistry Letters 1, 1994-2005 (2010). http://dx.doi.org/10.1021/jz1004957

51. V. Tejedor, O. Benichou, R. Voituriez, R. Jungmann, F. C. Simmel, C. Selhuber, L. Oddershede, and R. Metzler, Quantitative analysis of single particle trajectories, Biophysical Journal 98, 1364-1372 (2010).

50. S. Kaniber, M. Brandstetter, F. C. Simmel, I. Carmeli, A. Holleitner, On-Chip Functionalization of Carbon Nanotubes with Photosystem I, Journal of the American Chemical Society 132, 2872-2873 (2010).

49. S. Renner, S. Geltinger, F. C. Simmel, Nanopore Translocation and Force Spectroscopy Experiments in Microemulsion Droplets, Small, 6, 190-194 (2010). http://dx.doi.org/10.1002/smll.200901435

48. C. Steinhauer, R. Jungmann, T. Sobey, F. C. Simmel, P. Tinnefeld, DNA Origami as a Nanoscopic Ruler for Super-Resolution Microscopy, Angewandte Chemie International Edition, 48, 8870-8873 (2009). http://dx.doi.org/10.1002/anie.200903308

47. F. C. Simmel, Wiring-up ion channels (N&V article), Nature Physics, 5, 783-784 (2009). http://dx.doi.org/10.1038/nphys1434

46. F. C. Simmel, Processive Motion of Bipedal DNA Walkers, Chemphyschem, 10, 2593-2597 (2009). http://dx.doi.org/10.1002/cphc.200900493

45. S. Kaniber, F. C. Simmel, A. W. Holleitner, I. Carmeli, The optoelectronic properties of a photosystem I - carbon nanotube hybrid system, Nanotechnology, 20, art. no. 345701 (2009).

44. T. L. Sobey, S. Renner, F. C. Simmel, Assembly and melting of DNA nanotubes from single-sequence tiles, Journal of Physics Condensed Matter, 21, 034112 (2009). http://dx.doi.org/10.1088/0953-8984/21/3/034112

43. R. Jungmann, T. Liedl, T. L. Sobey, W. Shih, and F. C. Simmel, Isothermal assembly of DNA origami structures using denaturing agents, Journal of the American Chemical Society, 130, 10062-10063 (2008). http://dx.doi.org/10.1021/ja8030196

42. F. C. Simmel, Three-dimensional nanoconstruction with DNA, Angewandte Chemie Int. Ed. 47, 5884-5887 (2008).

41. R. Jungmann, S. Renner, F. C. Simmel, From DNA nanotechnology to synthetic biology, HFSP Journal 2, 99-109 (2008).

40. M. Olapinski, S. Manus, N. Fertig, F. C. Simmel, Probing whole cell currents in high-frequency fields: Identification of thermal effects, Biosensors and Bioelectronics 23, 872-878 (2008).

39. F. C. Simmel, Towards biomedical applications for nucleic acid nanodevices, Nanomedicine 2, 817-830 (2007).

38. T. Liedl, H. Dietz, B. Yurke, and F. C. Simmel, Controlled trapping and release of quantum dots in a DNA-switchable hydrogel, Small 3, 1688-1693 (2007).

37. E. Friedrichs and F. C. Simmel, Controlling DNA polymerization with a switchable aptamer, Chembiochem 8, 1662-1666 (2007).

36. T. Liedl and F. C. Simmel, Determination of DNA Melting Temperatures in Diffusion-Generated Chemical Gradients, Analytical Chemistry 79, 5212-5216 (2007).

35. T. Liedl, T. L. Sobey, and F. C. Simmel, DNA-based nanodevices, Nano Today 2, 36-41 (2007).

34. A. Reuter, W. U. Dittmer, and F. C. Simmel, Kinetics of protein-release by an aptamer-based DNA nanodevice, Eur. Phys. J. E 22, 33-40 (2007).

33. B. K. Müller, A. Reuter, F. C. Simmel and D. C. Lamb, Single-Pair FRET Characterization of DNA Tweezers, Nano Letters 6, 2814-2820 (2006).

32. T. Liedl, M. Olapinski, and F. C. Simmel, A surface-bound DNA switch driven by a chemical oscillator, Angewandte Chemie Int. Ed. 45, 5007-5010 (2006).

31. S. Beyer and F. C. Simmel, A DNA signal translator for the controlled release of a protein by an aptamer, Nucleic Acids Research 34, 1581-1587 (2006).

30. M. Olapinski, S. Manus, M. George, A. Bräggemann, N. Fertig, and F. C. Simmel, Detection of lipid bilayer and peptide pore formation at gigahertz frequencies, Applied Physics Letters 88, 013902 (2006).

29. T. Liedl and F. C. Simmel, Switching the Conformation of a DNA Molecule with a Chemical Oscillator, Nano Letters 5,1894-1898 (2005).

28. T. Liedl, S. Keller, F. C. Simmel, J. O. Rädler and W. J. Parak, Fluorescent Nanocrystals as Colloidal Probes in Complex Fluids Measured by Fluorescence Correlation Spectroscopy, Small 1, 997-1003 (2005).

27. W. U. Dittmer, S. Kempter, J. O. Rädler and F. C. Simmel, Using gene regulation to program DNA-based molecular devices, Small 1, 709-712 (2005).

26. S. Beyer, P. Nickels and F. C. Simmel, Periodic DNA nanotemplates synthesized by rolling circle amplification, Nano Letters 5, 719-722 (2005).

25. Stefan Beyer, W. U. Dittmer and F.C. Simmel, Design variations for an aptamer-based DNA nanodevice, Journal of Biomedical Nanotechnology 1, 96-101 (2005).

24. F. C. Simmel and W. U. Dittmer, DNA nanodevices, Small 1, 284-299 (2005).

23. P. Nickels, W. U. Dittmer, S. Beyer, J. P. Kotthaus and F. C. Simmel, Polyaniline nanowire synthesis templated by DNA, Nanotechnology 15, 1524-1529 (2004).

22. W. U. Dittmer and F. C. Simmel, Chains of semiconductor nanoparticles templated on DNA, Applied Physics Letters 85, 633-635 (2004).

21. W. U. Dittmer, A. Reuter und F. C. Simmel, A DNA-based machine that can cyclically bind and release thrombin, Angewandte Chemie Int. Ed. 43, 3550-3553 (2004).

20. W. U. Dittmer and F. C. Simmel, Transcriptional Control of DNA-based Nanomachines, Nano Letters 4, 689-691 (2004).

19. C. J.-F. Dupraz, P. Nickels, U. Beierlein, W. U. Huynh, and F. C. Simmel, Towards molecular-scale electronics and biomolecular self-assembly, Superlattices and Microstructures 33, 569-579 (2003).

18. A. T. Tilke, F. C. Simmel, H. Lorenz, R. H. Blick, and J. P. Kotthaus, Quantum interference in a one-dimensional silicon nanowire, Phys. Rev. B 68, 075311 (2003).

17. A. J. Turberfield, J. C. Mitchell, B. Yurke, A. P. Mills, Jr., M. I. Blakey, and F. C. Simmel, DNA-Fuel for Free-Running Nanomachines, Phys. Rev. Lett. 90, 118102 (2003).

16. F. C. Simmel, B. Yurke, and R.J. Sanyal, Operation kinetics of a DNA-based molecular switch, J. Nanosc. Nanotech. 1, 383-390 (2002).

15. F. C. Simmel and B. Yurke, A DNA-based molecular device switchable between three distinct mechanical states, Applied Physics Letters 80, 883-885 (2002).

14. A. Tilke, F. C. Simmel, B. Lorenz, R. H. Blick, J. P. Kotthaus, Coulomb blockade in silicon nanostructures, Progress in Quantum Electronics 25, 97-138 (2001).

13. F. C. Simmel and B. Yurke, Using DNA to construct and power a nanoactuator, Physical Review E 63, 041913 (2001),

12. H. Qin, F. Simmel, R. H. Blick, J. P. Kotthaus, M. Bichler, and W. Wegscheider, Determination of the complex microwave photoconductance of a single quantum dot, Physical Review B 63, 035320 (2001).

11. B. Yurke, A. J. Turberfield, A. P. Mills Jr, F. C. Simmel, and J. L. Neumann, A DNA-fuelled molecular machine made of DNA, Nature 406, 605-608 (2000).

10. David Abusch-Magder, F. Simmel, D. A. Wharam, M. A. Kastner, and J. P. Kotthaus, Spacing and width of Coulomb blockade peaks in a silicon quantum dot, Physica E 6, 382-387 (2000).

9. A. W. Holleitner, H. Qin, F. Simmel, B. Irmer, R. H. Blick, J. P. Kotthaus, A. V. Ustinov, and K. Eberl, Microwave spectroscopy on a double quantum dot with an on-chip Josephson oscillator, New Journal of Physics 2, 3.1 - 3.7 (2000).

8. F. Simmel, R. H. Blick, J. P. Kotthaus, W. Wegscheider, and M. Bichler, Anomalous Kondo effect in a quantum dot at non-zero bias, Physical Review Letters 83, 804 (1999).

7. B. Irmer, F. Simmel, R. H. Blick, H. Lorenz, J. P. Kotthaus, M. Bichler, and W. Wegscheider: Nano-ploughed Josephson junctions as on-chip radiation sources, Superlattices and Microstructures 25 , 785 (1999).

6. A. Tilke, M. Vogel, F. Simmel, A. Kriele, R. H. Blick, H. Lorenz, D. A. Wharam, and J. P. Kotthaus, Low-energy electron-beam lithography using calixarene, Journal of Vacuum Science and Technology B 17 , 1594 (1999).

5. F. Simmel, D. Abusch-Magder, D. A. Wharam, M. A. Kastner, and J. P. Kotthaus, Statistics of the Coulomb blockade peak spacings of a silicon quantum dot, Physical Review B 59, R10441-R10444 (1999).

4. B. Irmer, R. H. Blick, F. Simmel, W. Gödel, H. Lorenz, and J. P. Kotthaus, Josephson-junctions defined by a nanoplough, Applied Physics Letters 73, 2051-2053 (1998).

3. F. Simmel, T. Heinzel, and D. A. Wharam, Statistics of conductance oscillations of a quantum dot in the Coulomb-blockade regime, Europhysics Letters 38, 123-128 (1997).

2. F. Simmel and M. Eckert, Statistical measures for eigenfunctions of nonseparable quantum billiard systems, Physica D 97, 517-530 (1996).

1. F. Simmel and M. Eckert, Avoided crossings: Curvature distribution and behavior of eigenfunctions of pseudointegrable and chaotic billiards, Physical Review E 51, 5435-5441 (1995).

>> Book Articles

E. Friedrichs, F.C. Simmel, Nucleic acid based switches, in: "Molecular Switches, New Edition", B. L. Feringa (Hrsg.), Wiley-VCH, Weinheim (2011).

T. L. Sobey, F. C. Simmel, Protocols for Self-Assembly and Imaging of DNA Nanostructures, in: "DNA nanotechnology: Methods and Protocols Book Series", edited by G. Zuccheri, B. Samori, Methods in Molecular Biology, Vol. 749, 13-32 (2011).

F. C. Simmel, DNA Nanodevices: Prototypes and Applications, in: Nanodevices for the Life Sciences, C. S. S. R. Kumar (publisher), Wiley-VCH, Weinheim (2006)

F. C. Simmel and B. Yurke, DNA-based nanodevices, in: Encyclopedia of Nanoscience and Nanotechnology, H. S. Nalwa (publisher), American Scientific Publishers, Stevenson Ranch (2004).

W. J. Parak, L. Manna, F. C. Simmel, D. Gerion, A. P. Alivisatos, Quantum dots, in: Nanoparticles. From Theory to Application, G. Schmid (publisher), Wiley-VCH, Weinheim (2003).

>> Conference Proceedings

M. Scheible, R. Jungmann, and F. C. Simmel, Assembly and microscopic characterization of DNA origami structures, Advances in experimental medicine and biology, Vol. 733, 87-96 (2012).

E. Friedrichs, R. Jungmann, A. Tsokou, S. Renner, and F. C. Simmel, Towards in vivo nanomachines, Advances in Science and Technology, Vol. 58, 120-126 (2008).

F. C. Simmel, S. Beyer, E. Friedrichs, W. U. Dittmer, Functional DNA Nanodevices, Conference Proceedings, NANOMEC06 Symposium on Materials Science and Materials Mechanics at the Nanoscale, November (2006).

S. Beyer, W. U. Dittmer, A.Reuter, and F. C. Simmel, Controlled Release of Thrombin using Aptamer-based Nanodevices, Advances in Science and Technology, Vol. 53, 116-121 (2006).

F. C. Simmel, W. U. Dittmer and A. Reuter, Control and function for DNA nanodevices, Proc. 4th IEEE Conference On Nanotechnology, 305-307 (2004).

M. Olapinski, A. Brüggemann, M. George, S. Manus, N. Fertig, and F. C. Simmel, Probing lipid membranes and ion channels with high frequency spectroscopy, Proc. 4th IEEE Conference On Nanotechnology, 565-567 (2004).

W.U. Dittmer, A. Reuter, F. C. Simmel, Aptamer-based nanomachines, Conference Proceedings "Foundations of Nanoscience", April (2004).

B. Yurke and F. C. Simmel, A DNA-based three-state device, Proceedings of the Genetic and Evolutionary Computation Conference GECCO-2002, 147-152, Morgan Kaufmann Publishers, San Francisco (2002).

F. C. Simmel and B. Yurke, Operation of a purified DNA nanoactuator, Proceedings of the 7th International Meeting on DNA-Based Computers, DNA 7, Lecture Notes in Computer Science No. 2340, edited by N. Jonoska and N.C. Seeman, Springer Verlag, Heidelberg (2002).

F. C. Simmel and B. Yurke, DNA molecular motors, Proc. SPIE Vol. 4332, p. 419-428, Smart Structures and Materials (2001).

F. C. Simmel und B. Yurke, DNA machines for molecular self-assembly, Technical Proceedings of the International Conference on Computational Nanoscience ICCN 2001, p. 81-84, Computational Publications, Boston (2001).

Qin H, Simmel F, Holleitner A, Blick RH, Kotthaus JP, Wegscheider W, Bichler M, Microwave spectroscopy of a single quantum dot in the few electron limit, Advanced luminescent materials and quantum confinement, Electrochemical Society Series, 99 (22), 406-412 (1999).