Tobias Ambjörnsson

Senior Lecturer, M.Sc.
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  1. A fast and scalable kymograph alignment algorithm for nanochannel-based optical DNA mappings.

    Noble, C., Adam Nilsson, Freitag, C., Jason Beech, Jonas Tegenfeldt & Tobias Ambjörnsson, 2015, In : PLoS ONE. 10, 4, e0121905.

    Research output: Contribution to journalArticle

  2. Ageing single file motion

    Metzler, R., Sanders, L., Lomholt, M. A., Lizana, L., Fogelmark, K. & Tobias Ambjörnsson, 2014, In : The European Physical Journal. Special Topics. 223, 14, p. 3287-3293

    Research output: Contribution to journalArticle

  3. Applying a potential across a biomembrane: Electrostatic contribution to the bending rigidity and membrane instability

    Tobias Ambjörnsson, Lomholt, M. A. & Hansen, P. L., 2007, In : Physical Review E. 75, 5, 051916.

    Research output: Contribution to journalArticle

  4. A simple method to calculate first-passage time densities with arbitrary initial conditions

    Nyberg, M., Tobias Ambjörnsson & Lizana, L., 2016 Jun 1, In : New Journal of Physics. 18, 6, 063019.

    Research output: Contribution to journalArticle

  5. Bacteriophage strain typing by rapid single molecule analysis.

    Grunwald, A., Dahan, M., Giesbertz, A., Adam Nilsson, Nyberg, L. K., Weinhold, E., Tobias Ambjörnsson, Westerlund, F. & Ebenstein, Y., 2015, In : Nucleic Acids Research. 43, 18, p. e117

    Research output: Contribution to journalArticle

  6. Binding dynamics of single-stranded DNA binding proteins to fluctuating bubbles in breathing DNA

    Tobias Ambjörnsson & Metzler, R., 2005 May 25, In : Journal of Physics: Condensed Matter. 17, 20, p. S1841-S1869

    Research output: Contribution to journalArticle

  7. Blinking statistics of a molecular beacon triggered by end-denaturation of DNA

    Tobias Ambjörnsson & Metzler, R., 2005 Dec 14, In : Journal of Physics: Condensed Matter. 17, 49, p. S4305-S4316

    Research output: Contribution to journalArticle

  8. Breathing Dynamics in Heteropolymer DNA

    Tobias Ambjörnsson, Banik, S. K., Krichevsky, O. & Metzler, R., 2007 Apr 15, In : Biophysical Journal. 92, 8, p. 2674-2684

    Research output: Contribution to journalArticle

  9. Bubble coalescence in breathing DNA: Two vicious walkers in opposite potentials

    Novotny, T., Pedersen, J., T. Ambjörnsson, Hansen, M. S. & Metzler, R., 2007, In : Europhysics Letters. 77, 4, 48001.

    Research output: Contribution to journalArticle

  10. Bubble merging in breathing DNA as a vicious walker problem in opposite potentials.

    Pedersen, J., Hansen, M. S., Novotný, T., Tobias Ambjörnsson & Metzler, R., 2009, In : Journal of Chemical Physics. 130, 16, 164117.

    Research output: Contribution to journalArticle

  11. Chaperone-assisted translocation

    Tobias Ambjörnsson & Metzler, R., 2004 Jun 1, In : Physical Biology. 1, 2, p. 77-88

    Research output: Contribution to journalArticle

  12. Charged polymer membrane translocation

    T. Ambjörnsson, Apell, S. P., Konkoli, Z., Di Marzio, E. A. & Kasianowicz, J. J., 2002 Aug 22, In : The Journal of chemical physics. 117, 8, p. 4063-4073

    Research output: Contribution to journalArticle

  13. Competitive binding-based optical DNA mapping for fast identification of bacteria - multi-ligand transfer matrix theory and experimental applications on Escherichia coli.

    Adam Nilsson, Emilsson, G., Nyberg, L. K., Noble, C., Svensson Stadler, L., Fritzsche, J., Moore, E. R. B., Jonas Tegenfeldt, Tobias Ambjörnsson & Westerlund, F., 2014, In : Nucleic Acids Research. 42, 15, p. e118

    Research output: Contribution to journalArticle

  14. Detailed characterization of plasmids carrying resistance genes using optical DNA mapping

    Müller, V., Nyberg, L. K., Quaderi, S., Kristiansson, E., Tobias Ambjörnsson, Sandegren, L. & Westerlund, F., 2016, 20th International Conference on Miniaturized Systems for Chemistry and Life Sciences, MicroTAS 2016. Chemical and Biological Microsystems Society, p. 1561-1562 2 p.

    Research output: Chapter in Book/Report/Conference proceedingPaper in conference proceeding

  15. Diffusion of two particles with a finite interaction potential in one dimension

    Tobias Ambjörnsson & Silbey, R. J., 2008 Oct 28, In : The Journal of chemical physics. 129, 16, p. 165103

    Research output: Contribution to journalArticle

  16. Dipolar response of an ellipsoidal particle with an anisotropic coating

    T Ambjörnsson & Mukhopadhyay, G., 2003 Oct 24, In : Journal of Physics A: Mathematical and General. 36, 42, p. 10651-10665

    Research output: Contribution to journalArticle

  17. Direct identification of antibiotic resistance genes on single plasmid molecules using CRISPR/Cas9 in combination with optical DNA mapping

    Müller, V., Rajer, F., Frykholm, K., Nyberg, L. K., Quaderi, S., Fritzsche, J., Kristiansson, E., Tobias Ambjörnsson, Sandegren, L. & Westerlund, F., 2016 Dec 1, In : Scientific Reports. 6, 37938.

    Research output: Contribution to journalArticle

  18. Dissimilar bouncy walkers

    Lomholt, M. A., Lizana, L. & Tobias Ambjörnsson, 2011, In : Journal of Chemical Physics. 134, 4, 045101.

    Research output: Contribution to journalArticle

  19. Dynamic Approach to DNA Breathing

    Metzler, R. & Tobias Ambjörnsson, 2005 Dec 1, In : Journal of Biological Physics. 31, 3-4, p. 339-350

    Research output: Contribution to journalArticle

  20. Electromagnetic response of a dipole-coupled ellipsoidal bilayer

    T. Ambjörnsson, Apell, S. P. & Mukhopadhyay, G., 2004, In : Physical Review E. 69, 3, 031914.

    Research output: Contribution to journalArticle

  21. Ellipsoidal particles driven by intensity gradients through viscous fluids

    T. Ambjörnsson & Apell, S. P., 2003, In : Physical Review E. 67, 3, 031917.

    Research output: Contribution to journalArticle

  22. Enzyme-free optical DNA mapping of the human genome using competitive binding

    Müller, V., Albertas Dvirnas, Andersson, J., Singh, V., Kk, S., Johansson, P., Ebenstein, Y., Tobias Ambjörnsson & Westerlund, F., 2019 Sep 5, In : Nucleic Acids Research. 47, 15, e89.

    Research output: Contribution to journalArticle

  23. Extension of nanoconfined DNA: Quantitative comparison between experiment and theory

    Iarko, V., Werner, E., Nyberg, L. K., Muller, V., Fritzsche, J., Tobias Ambjörnsson, Jason Beech, Jonas Tegenfeldt, Mehlig, K., Westerlund, F. & Mehlig, B., 2015, In : Physical Review E (Statistical, Nonlinear, and Soft Matter Physics). 92, 6, 062701.

    Research output: Contribution to journalArticle

  24. Facilitated sequence assembly using densely labeled optical DNA barcodes: A combinatorial auction approach

    Albertas Dvirnas, Christoffer Pichler, Stewart, C. L., Quaderi, S., Nyberg, L. K., Müller, V., Bikkarolla, S. K., Kristiansson, E., Sandegren, L., Westerlund, F. & Tobias Ambjörnsson, 2018 Mar 1, In : PLoS ONE. 13, 3, e0193900.

    Research output: Contribution to journalArticle

  25. Fast size-determination of intact bacterial plasmids using nanofluidic channels

    Frykholm, K., Nyberg, L. K., Lagerstedt, E., Noble, C., Fritzsche, J., Karami, N., Tobias Ambjörnsson, Sandegren, L. & Westerlund, F., 2015, In : Lab on a Chip. 15, 13, p. 2739-2743

    Research output: Contribution to journalArticle

  26. Fitting a function to time-dependent ensemble averaged data

    Fogelmark, K., Lomholt, M. A., Anders Irbäck & Tobias Ambjörnsson, 2018 Dec 1, In : Scientific Reports. 8, 1, 6984.

    Research output: Contribution to journalArticle

  27. Foundation of fractional Langevin equation: Harmonization of a many-body problem

    Lizana, L., Tobias Ambjörnsson, Taloni, A., Barkai, E. & Lomholt, M. A., 2010, In : Physical Review E (Statistical, Nonlinear, and Soft Matter Physics). 81, 5

    Research output: Contribution to journalArticle

  28. How nanochannel confinement affects the DNA melting transition within the Poland-Scheraga model.

    Reiter-Schad, M., Werner, E., Jonas Tegenfeldt, Mehlig, B. & Tobias Ambjörnsson, 2015, In : Journal of Chemical Physics. 143, 11, 115101.

    Research output: Contribution to journalArticle

  29. Identifying bacteria using DNA binding maps

    Emilsson, G., Adam Nilsson, Nyberg, L. K., Noble, C., Svensson Stadler, L., Moore, E. R. B., Tobias Ambjörnsson, Jonas O. Tegenfeldt & Westerlund, F., 2013 Jan 1, 17th International Conference on Miniaturized Systems for Chemistry and Life Sciences, MicroTAS 2013. Chemical and Biological Microsystems Society, Vol. 1. p. 473-475 3 p.

    Research output: Chapter in Book/Report/Conference proceedingPaper in conference proceeding

  30. Many-body effects on tracer particle diffusion with applications for single-protein dynamics on DNA

    Ahlberg, S., Tobias Ambjörnsson & Lizana, L., 2015, In : New Journal of Physics. 17, 043036.

    Research output: Contribution to journalArticle

  31. Master equation approach to DNA breathing in heteropolymer DNA

    Tobias Ambjörnsson, Banik, S. K., Lomholt, M. A. & Metzler, R., 2007, In : Physical Review E. 75, 2, 021908.

    Research output: Contribution to journalArticle

  32. Microscopic Origin of the Logarithmic Time Evolution of Aging Processes in Complex Systems

    Lomholt, M. A., Lizana, L., Metzler, R. & Tobias Ambjörnsson, 2013, In : Physical Review Letters. 110, 20, 208301.

    Research output: Contribution to journalArticle

  33. Model for melting of confined DNA

    Werner, E., Reiter-Schad, M., Tobias Ambjörnsson & Mehlig, B., 2015, In : Physical Review E (Statistical, Nonlinear, and Soft Matter Physics). 91, 6, 060702.

    Research output: Contribution to journalArticle

  34. Nanoconfined Circular and Linear DNA: Equilibrium Conformations and Unfolding Kinetics

    Alizadehheidari, M., Werner, E., Noble, C., Reiter-Schad, M., Nyberg, L. K., Fritzsche, J., Mehlig, B., Jonas Tegenfeldt, Tobias Ambjörnsson, Persson, F. & Westerlund, F., 2015, In : Macromolecules. 48, 3, p. 871-878

    Research output: Contribution to journalArticle

  35. Nanoconfined circular DNA

    Alizadehheidari, M., Werner, E., Noble, C., Nyberg, L. K., Fritzsche, J., Persson, F., Mehlig, B., J. O. Tegenfeldt, T. Ambjörnsson & Westerlund, F., 2014, 18th International Conference on Miniaturized Systems for Chemistry and Life Sciences, MicroTAS 2014. Chemical and Biological Microsystems Society, p. 1353-1355 3 p.

    Research output: Chapter in Book/Report/Conference proceedingPaper in conference proceeding

  36. Nature of polarized excitons

    T. Ambjörnsson & Apell, S. P., 2001 Feb 22, In : The Journal of chemical physics. 114, 8, p. 3365-3372

    Research output: Contribution to journalArticle

  37. Noise reduction in single time frame optical DNA maps

    Torche Pedreschi, P. C., Müller, V., Westerlund, F. & Tobias Ambjörnsson, 2017 Jun 1, In : PLoS ONE. 12, 6, e0179041.

    Research output: Contribution to journalArticle

  38. Non-Markovian effects in the first-passage dynamics of obstructed tracer particle diffusion in one-dimensional systems.

    Forsling, R., Sanders, L., Tobias Ambjörnsson & Lizana, L., 2014, In : Journal of Chemical Physics. 141, 9, 094902.

    Research output: Contribution to journalArticle

  39. Observing Plasmonic-Molecular Resonance Coupling on Single Gold Nanorods

    Ni, W., Tobias Ambjörnsson, Apell, S. P., Chen, H. & Wang, J., 2010, In : Nano Letters. 10, 1, p. 77-84

    Research output: Contribution to journalArticle

  40. Optical DNA Mapping Combined with Cas9-Targeted Resistance Gene Identification for Rapid Tracking of Resistance Plasmids in a Neonatal Intensive Care Unit Outbreak

    Bikkarolla, S. K., Nordberg, V., Rajer, F., Müller, V., Kabir, M. H., Kk, S., Albertas Dvirnas, Tobias Ambjörnsson, Giske, C. G., Navér, L., Sandegren, L. & Westerlund, F., 2019 Jul 9, In : mBio. 10, 4, e00347-19.

    Research output: Contribution to journalArticle

  41. Optimal Target Search on a Fast-Folding Polymer Chain with Volume Exchange

    Lomholt, M. A., Tobias Ambjörnsson & Metzler, R., 2005, In : Physical Review Letters. 95, 26, 260603.

    Research output: Contribution to journalArticle

  42. Rapid identification of intact bacterial resistance plasmids via optical mapping of single DNA molecules

    Nyberg, L. K., Quaderi, S., Emilsson, G., Karami, N., Lagerstedt, E., Müller, V., Noble, C., Hammarberg, S., Adam N. Nilsson, Sjöberg, F., Fritzsche, J., Kristiansson, E., Sandegren, L., Tobias Ambjörnsson & Westerlund, F., 2016 Jul 27, In : Scientific Reports. 6, 30410.

    Research output: Contribution to journalArticle

  43. Rapid tracing of resistance plasmids in a nosocomial outbreak using optical DNA mapping

    Müller, V., Karami, N., Nyberg, L. K., Christoffer Pichler, Torche Pedreschi, P. C., Quaderi, S., Fritzsche, J., Tobias Ambjörnsson, Åhrén, C. & Westerlund, F., 2016 May 13, In : ACS Infectious Diseases. 2, 5, p. 322-328 7 p.

    Research output: Contribution to journalArticle

  44. Resonant coupling between localized plasmons and anisotropic molecular coatings in ellipsoidal metal nanoparticles

    Tobias Ambjörnsson, Mukhopadhyay, G., Apell, S. P. & Käll, M., 2006, In : Physical Review B. 73, 8

    Research output: Contribution to journalArticle

  45. Sensing DNA–DNA as Nanosensor: A Perspective Towards Nanobiotechnology

    Metzler, R. & Tobias Ambjörnsson, 2005 Sep 1, In : Journal of Computational and Theoretical Nanoscience. 2, 3, p. 389-395

    Research output: Contribution to journalArticle

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