This is the publication list of the BioMIP group while affiliated with the Ruhr Universität (since April 2004). The complete publication list of John S. McCaskill is also available.
2004 (RUB)
Chemnitz, S., M. Jünger, et al. (2004). Hybrid BioModules Based on Printed Circuit Board Technology. Chemische und biologische Mikrolabortechnik, Ilmenau, Germany.
Füchslin, R. M., S. Altmeyer, McCaskill, JS (2004). "Evolutionary stabilization of generous replicases by complex formation." Europ. Phys J. 38(1): 103-110. http://dx.doi.org/10.1140/epjb/e2004-00105-2
Schäfer, H., S. Chemnitz, et al. (2004). A New Technology for an Application Specific Lab-on-Microchip. The Nano-Micro Interface. H. J. Fecht and M. Werner. Weinheim, Wiley: 119-137. http://onlinelibrary.wiley.com/doi/10.1002/3527604111.ch10
Van Noort, D. and McCaskill, JS. (2004). "Flows in micro fluidic networks: From theory to experiment." Natural Computing 3(4): 395. http://www.springerlink.com/openurl.asp?genre=article&id=doi:10.1007/s11047-004-2667-2
Wagler, PF., Tangen, U., Maeke, T., Chemnitz, S., Jünger, M., McCaskill, JS (2004). Molecular systems on-chip (MSoC) - steps forward for programmable biosystems. SPIE: Smart Structures and Materials 2004, San Diego, CA, USA, Proceedings of SPIE. Vol 5389 - Smart Structures and Materials 2004: Smart Electronics, MEMS, BioMEMS, and Nanotechnology, 298:305
http://spiedigitallibrary.org/dbt/dbt.jsp?KEY=PSISDG&Volume=5389&Issue=1&bproc=symp&scode=SS04
Wagler, PF., Tangen, U., Maeke, T., Chemnitz, S., Jünger, M., McCaskill, JS (2004). Molecular Systems on a chip: Steps forward for programmable Biosystems. 2nd Workshop Proceedings: Chemische und biologische Mikrolabortechnik, Ilmenau.
2005
Tangen, U., Wagler, P.F., Chemnitz, S, Goranovic, G, Maeke, T., McCaskill, J. S., An electronically controlled microfluidics approach towards artificial cells paper presented at the European Conference on Complex Systems 2005. http://complexite.free.fr/ECCS05/proceedingsECCS05.pdf
McCaskill, J. S., Ehses, S. et al., Stationary chemical gradient reactors in the search for artificial cells paper presented at the MicroTas 2005, Boston 2005.
Wagler, P. F. et al., Dynamical multiphase structures in the microsystem approach to artificial cells paper presented at the MicroTas 2005 Boston, 2005.
Wagler, P., Tangen, U, Maeke, T, Chemnitz, S, Jünger, M and McCaskill, J.S., Molecular systems on-chip (msoc) - steps forward for programmable biosystems paper presented at the SPIE: Smart Structures and Materials 2004 (San Diego, CA, USA) 2005.
Ehses, S., Ackermann, J., McCaskill, J. S., Optimization and design of oligonucleotide setup for strand displacement amplification, J Biochem Biophys Methods 63, (Jun 30, 2005) 170-86. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db;=PubMed&dopt;=Citation&list;_uids=15975661
Ehses, S., Ph. D., Ruhr-Universität Bochum, Advisors: McCaskill, J. S., Kiedrowski, G. v. (2005)"Isothermal in vitro selection and amplification to investigate evolution processes."
Rücker, T., Ph.D., University of Bonn, Advisors: McCaskill, J. S., Famulok, M. (2005)."Biomolecular information processing in networked microflow reactors."
2006
Chemnitz, S., Tangen, U., Wagler, P. F., Maeke, T., McCaskill, J. S., Electronically programmable membranes for improved biomolecule handling in micro-compartments on-chip paper presented at the 9th International Conference on Microreaction Technology (IMRET 9) 2006.
Füchslin, R., Maeke, T., Tangen, U., McCaskill, J. S., Evolving inductive generalization via genetic self-assembly, Advances in Complex Systems 9, (2006) 1-29.
Tangen, U. et al., An electronically controlled microfluidics approach towards artificial cells., CompPlexUs 3, (2006) 48-57. http://dx.doi.org/10.1159/000094187 http://content.karger.com/ProdukteDB/produkte.asp?doi=10.1159/000094187
Chemnitz, S., Ph.D., Univ. Saarland, Advisors: McCaskill, J. S., Seidel, H. (2006) "Hybrid microfludic systems as a programmable environment to study biochemical model reactions."
2007
McCaskill, J. S., in Protocells: Bridging nonliving and living matter Rasmussen, S. et al., Eds. (MIT Press, 2007). http://mitpress.mit.edu/catalog/item/default.asp?ttype=2&tid;=11630
Tangen, U., From evolving software towards models of dynamically self-assembling processing systems, paper presented at the Proceedings of ECCS 2006 (2007).
Wagler, P. F., Hempelmann, W., Programmierbare Flüsse in Mikrofluidikchips, GIT Labor-Fachzeitschrift, (2007) 736. http://www.wagler-home.de/publications/svx_media/git0907_736_wagler.pdf
McCaskill, J., Packard, N. H., Rasmussen, S., Bedau, M. A., Evolutionary self-organization in complex fluids, Phil. Trans. Roy. Soc. Lond. ser. B 362, (2007) 1763-79. http://www.journals.royalsoc.ac.uk/content/y2k482233q3x8218/fulltext.pdf
Bagheri-Maurer, J., Wagler, P. F., “How to fill fpfa chip modules, version 30 may '07: Operations-manual (how to use the fpfa and biomodule resp.)” (2007). https://134.147.93.67/bmcmyp/Data/PACE/Working_Area/Movement_simulator/BioPRO_Software/FPFA_use_manual.pdf
Maeke, T., “Hardware-manual of bio@fox, biopro-hardware-manual revision 0.13” (2007). https://134.147.93.67/bmcmyp/Data/PACE/Working_Area/Movement_simulator/BioPRO_Software/biopro_hw_manual.pdf
Tangen, U., “User's-manual of biopro-software, users- and programmers-manual version 0.2” (2007). https://134.147.93.67/bmcmyp/Data/PACE/Working_Area/Movement_simulator/BioPRO_Software/biopro_user_manual.pdf
2008
McCaskill, J.S. in: “Protocells: Bridging nonliving and living matter”, ed. by S. Rasmussen et al., MIT Press Cambridge, Mass., London, England (2008) pp. 253-295. Evolutionary microfluidic complementation toward artificial cells. http://mitpress.mit.edu/catalog/item/default.asp?ttype=2&tid;=11630
Chemnitz, S., Tangen, U., Wagler, P. F., Maeke, T., McCaskill, J. S., Electronically programmable membranes for improved biomolecule handling in micro-compartments on-chip, Chemical Engineering Journal 135S, (2008) 276-9. http://dx.doi.org/10.1016/j.cej.2007.07.061
Füchslin, R. M., Eriksson, A., Fellermann, H., Ziock, H., Coarse-graining and scaling in dissipative particle dynamics, Journal of Chemical Physics submitted, (2008). http://arxiv.org/abs/cond-mat/0703682
Tangen, U., “Declaration of the external interface between the ng_biopro-software and another external control-program, version 0.49 enhanced command 's'” (2008). https://134.147.93.67/bmcmyp/Data/PACE/Working_Area/Movement_simulator/BioPRO_Software/ext_interface.pdf
Rasmussen, S., Bedau, M.A., McCaskill, J.S. , Packard, N. in “Protocells: Bridging nonliving and living matter”, ed. by S. Rasmussen et al., MIT Press Cambridge, Mass., London, England (2008) pp. 71-101. A roadmap to protocells
McCaskill JS, Packard NH, Rasmussen S, von Kiedrowski G, Poli I, Nielsen P, Lindgren K, Solé R, Pfeifer R, Tamulis A, Mouritsen O, Eggenberger P, McMullin B, Bedau MA "The PACE Report" (2008)
http://www.istpace.org/Web_Final_Report/the_pace_report/index.html
2009
Füchslin, R.M., Maeke, T., McCaskill, J.S. “Spatially resolved simulation of membrane reactions and dynamics: Multipolar reaction DPD”, Eur. Phys. J.E. 29, 413-448 (2009), DOI
Bedau, M.A., Parke, E.C., Tangen, U., Hantsche-Tangen, B. “Social and ethical checkpoints for bottom-up synthetic biology, or protocells”, Syst. Synth. Biol. 3, 65-75 (2009), DOI 10.1007/s11693-009-9039-2
2010
Bedau, M.A., McCaskill, J.S., Packard, N.H., Rasmussen, S. ”Living technology: Exploiting life's principles in technology”, Artificial Life (2010), vol 16(1) , 89-97. DOI: 10.1162/artl.2009.16.1.16103
McCaskill, J.S. ”Living technology: 5 Questions” in Bedau, M.A. et al (eds.) ”Living technology: 5 Questions”, pp 111-121 (2010) Automatic Press. ISBN-10 89-92130-29-1.
Tangen, U. “Enzyme-like replication de novo in a micro-controller”, Artificial Life, to appear 2010.