Biomolecular Information Processing Research Group at
GMD (German National Research Centre for IT) and later FhG (Fraunhofer)
1999-2004 Evolutionary Self-Organization
Bedau, MA, McCaskill, JS, Packard, NH, Rasmussen, S, Adami, C, Green, DG, Ikegami, T, Kaneko, K and Ray, TS "Open problems in artificial life" Artificial Life (2000) 6(4) 363-376. http://dx.doi.org/10.1162/106454600300103683
Füchslin, RM, Altmeyer, S and McCaskill, JS "Simulation of evolving systems using FPGA – technology" (2000) in Ed:Hoffmannn, KH "Coupling of biological and electronic systems" 2nd Caesarium 2000 (Bonn, Germany) (Springer, 2002) 41-57.
Tangen, U, Maeke, T and McCaskill, JS "Advanced simulation in the configurable massively parallel hardware MereGen" (2000) in Ed:Hoffmannn, KH "Coupling of biological and electronic systems" 2nd Caesarium 2000 (Springer, 2002) 107-118.
Altmeyer, S and McCaskill, JS "Error threshold for spatially resolved evolution in the quasispecies model" Physical Review Letters (2001) 86(25) 5819-5822. http://dx.doi.org/10.1103/PhysRevLett.86.5819
Fuchslin, RM and McCaskill, JS "Evolutionary self-organization of cell-free genetic coding" Proceedings of the National Academy of Sciences of the United States of America (2001) 98(16) 9185-9190. http://dx.doi.org/10.1073/pnas.151253198
1999-2004 DNA Computing & DNA Processing
McCaskill, JS and Wagler, PF "From Reconfigurability to Evolution in construction Systems: Spanning the Electronic, Microfluidic and Biomolecular Domains" Lect. Notes in Comp. Sci. (2000) 1896(286-299.
McCaskill, JS "Optically programming DNA computing in microflow reactors" Biosystems (2001) 59(2) 125-138. http://dx.doi.org/10.1016/S0303-2647(01)00099-5
Penchovsky, R, Birch-Hirschfeld, E and McCaskill, JS "End-specific covalent photo-dependent immobilisation of synthetic DNA to paramagnetic beads" Nucleic Acids Res (2000) 28(22) E98. http://dx.doi.org/10.1093/nar/28.22.e98
Gast, FU, van Noort, D and McCaskill, JS "Mikrofluidik-Chip für einen DNA-Rechner" (2000) GMD-Spiegel 2000(3/4) 27-29.
McCaskill, JS "Biomolecular Computing" (2000) ERCIM News 43 30-31.
McCaskill, JS "Configurable DNA Computing" (2000) ERCIM News 43 33-35.
McCaskill, JS, Penchovsky, R, Gohlke, M, Ackermann, J and Rücker, T "Steady Flow Micro-Reactor Module for Pipelined DNA Computations" Lect. Notes in Comp. Sci. (2001) 2054(263-270.
1999-2004 General and Misc
Bedau, MA, McCaskill, JS, Packard, NH, Rasmussen, S, Adami, C, Green, DG, Ikegami, T, Kaneko, K and Ray, TS "Open problems in artificial life" Artificial Life (2000) 6(4) 363-376. http://dx.doi.org/10.1162/106454600300103683
McCaskill, JS "On the imminence of Artificial Life" (2000) GMD-Spiegel 2000(3/4) 21-23.
Ackermann, J, Tangen, U, Bodekker, B, Breyer, J, Stoll, E and McCaskill, JS "Parallel random number generator for inexpensive configurable hardware cells" Computer Physics Communications (2001) 140(3) 293-302. http://dx.doi.org/10.1016/S0010-4655(01)00242-9
Kirner, T, Steen, D, McCaskill, JS and Ackermann, J "Biochemical amplification waves in a one-dimensional microflow system" Journal of Physical Chemistry B (2002) 106(17) 4525-4532. http://dx.doi.org/10.1021/jp013633o
Ehses, S, Ackermann, J and McCaskill, JS "Optimization and design of oligonucleotide setup for strand displacement amplification" Journal of Biochemical and Biophysical Methods (2005) 63(3) 170-186. http://dx.doi.org/10.1016/j.jbbm.2005.04.005