2012

Peer-reviewed 2012

Journal Articles

  1. Microscale Chemically Reactive Electronic Agents / McCaskill, JS, v. Kiedrowski, G, Oehm, J, Mayr, P, Cronin, L, Willner, I, Herrmann, A, Rasmussen, S, Stepanek, F, Packard, NH, Wills, P. International Journal on Unconventional Computing, vol 8, no 4, pp 289-299, 2012
  2. Hydrothermal Precipitation of Artificial Violarite / Jørgensen, W.H.; Toftlund, H. & Warner, T.E.. Hydrometallurgy (2012)
  3. Simple photolithographic rapid prototyping of microfluidic chips / Kunstmann-Olsen, C.; Hoyland, J. & Rubahn, H.G. Microelectronic Engineering (2012)
  4. Quantification of the p–p Interactions that Govern Tertiary Structure in Donor-Acceptor [2]Pseudorotaxanes / Hansen, S.W.; Sørensen, A.I.; Witlicki, E.H.; Kongsted, J.; Flood, A.H. & Jeppesen, J.O.J. Am. Chem. Soc.2012, 134, 3857–3863
  5. A Formalism for Scattering of Complex Composite Structures: I Applications to Branched Structures of Asymmetric Sub-Units / Svaneborg, C. & Pedersen, J.S. Journal of Chemical Physics 136, 104105 (2012) and republished in Virtual Journal of Biological Physics Research (2012).
  6. A Formalism for Scattering of Complex Composite Structures: 2 Distributed Reference Points /Svaneborg, C. & Pedersen, J.S. Journal of Chemical Physics 136, 154907 (2012) and republished in Virtual Journal of Nanoscale Science & Technology (2012).
  7. LAMMPS Framework for Dynamic Bonding and Application Modelling DNA / Svaneborg, C. Computer Physics Communications 183, 1793 (2012)
  8. Dimerization of Monobenzoylated Monopyrrolotetrathiafulvalene / Nielsen, K.; Bond, A. D.; Larsen, K. R. Synthesis, Vol. 44. No. 7, pp. 1126 - 1130 (2012)
  9. Nonenzymatic Polymerization of Nucleic Acids from Monomers: Monomer Self-Condensation and Template Directed Reactions / Dörr, M. Löffler, P. M. G. & Monnard, P.-A. Current Organic Synthesis, Vol 9 (6), pp 735-763 (29) (2012).
  10. A Novel and Efficient Method to Prepare Oligovesicular Vecicles. / Hadorn, M.; Boenzli, E. Hanczyc, M.M. & Eggenberger, P.H. SUBMITTED
  11. Phototriggered DNA phosphoramidate ligation in a tandem 5´-amine deprotection / 3´-imidazolide activated phosphate coupling reaction / Cape, J. L., Edson, J. B., Spencer, L. P., DeClue, M. S., Ziock, H.-J., Maurer, S. E., Rasmussen, S., Monnard, P.-A. and Boncella, J. M. Bisconjugate Chemistry 23 (10), pp 2014–2019 (2012)
  12. Eutectic-phases in water-ice permit non-enzymatic primer elongation past an AA template sequence. / Löffler, P.M.G., Dörr, M. and Monnard, P.-A.*: Submitted (2012)
  13. Viability Conditions for a Compartmentalized Protometabolic System: A Semi-Empirical Approach / Piedrafita, G., Ruiz-Mirazo, K., Monnard, P.-A., Cornish-Bowden, A. and Montero, F. PLoS ONE (2012)
  14. Automatation and Feedback Control for Molecular Robotics. / Share, A.I.; Andersen, S. S.; Hansen, T. S.; Hansen, S. W.; Jeppesen, J. O. & Flood, A. H. Submitted (2012)
  15. DNA Self-assembly and Computation Studied with a Coarse-grained Dynamic Bonded Model / Svaneborg, C.; Fellermann, H. & Rasmussen, S. Lecture Notes in Computer Science: DNA Computing and Molecular Programming, Vol. 7433 (2012)
  16. Hieracical Unilamellar Vesicles of Controlled Compositional Heterogeneity / Hadorn, M.; Boenzli. E.; Hotz, P.E. & Hanczyc, M.M. PLOSONE (2012)
  17. Specific and reversible DNA-directed self-assembly of oil-in-water emulsion droplets / Hadorn, M.; Boenzli. E.; Sørensen, K.T.; Fellermann, H.; Hotz, P.E. & Hanczyc, M.M. PNAS, 109 (47) (2012)
  18. An Oil Droplet Division-Fusion Cycle / Caschera, F.; Rasmussen, S. & Hanczyc, M. ChemPlusChem (2012)
  19. On Prebiotic Ecology, Supramolecular Selection and Autopoiesis / Wieczorek, R. Origins of Life and Evolution of Biospheres, vol. 42 (5), pp 445-452 (2012)
  20. Interaction Between Polymer Brush-Coated Spherical Nanoparticles:Effect of Solvent Quality, Federica Lo Verso, S. E. Egorov, K. Binder, Macromolecules 45, 8893-8902 (2012) 
  21. Effect of the solvent quality on the structural rearrangement of spherical brushes: Coarse-grained models, Federica Lo Verso, L. Yelash, S. A. Egorov, K., Soft Matter 8, 4185-4196 (2012)
  22. Telechelic star polymers as self-assembling units from the molecular to the macroscopic scale, B. Capone, I. Coluzza, Federica Lo Verso, C. N. Likos, R. Blaak, Physical Review Letters 109, 238301-238306 (2012)

     

     

Book Chapters

  1. Membrane Self-Assembly Processes: Steps towards the First Cellular Life. Monnard, P.-A. & Deamer, D. W. in Minimal Cells (2011)

Contributions to Conference Proceedings, Conference Abstracts, Extended Abstracts

  1. Peptides as catalysts in the RNA world. / Wieczorek, R.; Dörr, M.; Luisi, P.L. & Monnard, P.-A. @ Gordon Research Seminar on the Origin of Life, Texas, USA (January 7-8, 2012)
  2. Integrating Molecular Computation and Material Production in an Artificial Subcellular Matrix / Fellermann, H.; Hadorn, M.; Bönzli, E. & Rasmussen, S. @ Living Machine 2012: The First International Conference on Biomimetic and Biohybrid Systems, Barcelona, Spain (July 9-12, 2012)
  3. Protocellular energetics and autonomous functions. / Albertsen, A.N.; Maurer, S.E.; Cape, J.; Fellermann, H.; Boncella, J.M.; Ziock, H.J.; Rasmussen, S. & Monnard, P.-A. Proceedings of the 13th International Conference on Synthesis and Simulation of Artificial Life. MIT Press (2012)
  4. Mapping the collective intelligence of the Artificial Life XIII stakeholders / Dörr, M.; Schmidt-Petersen, S.; Fellermann, H.; Laursen, L. & Rasmussen, S. Proceedings of the 13th International Conference on Synthesis and Simulation of Artificial Life. MIT Press (2012)
  5. A Minimal Artificial Subcellular Matrix. / Hadorn, M.; Gil, B.; Svaneborg, C.; Hanczyc, M.M.; Fellermann, H.; Fuchslin, R.; Hotz, P.E.; Kunstmann-Olsen, C.; Lancet, D.; McCaskill, J.; Monnard, P.-A.; Kiedrowski, G.V. & Rasmussen, S. Proceedings of the 13th International Conference on Synthesis and Simulation of Artificial Life. MIT Press (2012)
  6. Towards protocellular embedded replication of nucleic acids. / Löffler, P.M.G.; Wieczorek, R.;Wamberg, M.; Dörr, M.; Pedersen, P.L.; Svaneborg, C.; Fellermann, H.; Edson, J.B.; Cape, J.L.; Ziock, H.J.; Boncella, J.M.; Rasmussen, S. & Monnard, P.-A. Proceedings of the 13th International Conference on Synthesis and Simulation of Artificial Life. MIT Press (2012)
  7. How to implement a wetware system able to emulate in silico results. / Hadorn, M.; Boenzli, E.; Hanczyc, M.M.; Rasmussen, S. & Hotz, P.E. Proceedings of the 13th International Conference on Synthesis and Simulation of Artificial Life. MIT Press (2012)
  8. How does Biology Emerge from Chemistry? / Wieczorek, R. Workshop on Open Questions on the Origin of Life, 2012. University of Leicester, UK (May 1-4, 2012)
  9. An Artificial Multivesicular In Vitro System to Emulate Multicellular Processes. / Hadorn, M.; Bønzli, E.; Hanczyc, M.; Rasmussen, S. & Hotz, P. E. Artificial Life 13 Conference, Lansing, Michigan, USA (July 19-22, 2012)

Posters

  1. Peptides as catalysts in the RNA world. / Wieczorek, R.; Dörr, M.; Luisi, P.L. & Monnard, P.-A. @ Gordon Research Conference on the Origin Of Life, Texas, USA (January 8-12, 2012)
  2. Genetically Controlled Fusion, Exocytosis and Fission of Artificial Vesicles. / Bonzli, E.; Hadorn, M.; de Lucrezia, D.; Jørgensen, M.G. Eggenberger Hotz, P.; Hanczyc, M & Yomo, T. @ International Congress on Personalized Medicine, Florence, Italy (February 2, 2012)

Non-Peer-Review 2012

Journal Articles

  1. “Lipid protocells” in Encyclopedia of Biophysics. Eds Prof, Roberts & the European Biophysical Societies Association (EBSA), Springer Science. / Albertsen, A. N. & Monnard P.-A. (2012)

Popular Science Publications

  1. Fra syntetisk liv til levende teknologi / Svaneborg, C.; Albertsen, A.N.; Fellermann, H. & Rasmussen, S. videnskab.dk (2012)

Posters

  1. Modelling DNA Dynamics, Self-Assembly and Computation / Svaneborg, C., Fellermann, H., Rasmussen R. @ Computational Bioscience Minisymposium, University of Southern Denmark, Odense, Denmark. April 11, 2012

Other

  1. Spartacus: A platform for spatially resolved artificial chemistry simulation / Fellermann, H. Software Packet. Netpublication (2012)
  2. LAMMPS Framework for Dynamic Bonding and DNA dynamics examples / Svaneborg, C. Computer Physics Communications Program Library (2012)
  3. Bola-Amphiphile Self-Assembly / Svaneborg, C. Video @ YouTube (2012)
  4. DNA-Icosahedron Self-Assembly / Svaneborg, C. Video @ YouTube (2012)