thearlin@vdsvax.crd.ge.com (Thearling Kurt H) (08/18/89)
Here's a list of references for a combination of the fields
of Biology and Computation. It includes refrecences on
Molecular Computation, Computer-Aided Protein Design, Modeling
Biomolecules, and others. Since my background is in
computer science rather than biology, the biology does not
usually get too technically detailed.
kurt
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Kurt Thearling 1101 W. Springfield Avenue
University of Illinois Urbana, Il 61801
Coordinated Science Lab kurt@bach.csg.uiuc.edu
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Biology and Computation (and vice-versa): A List of References
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R.M. Baer and H.M. Martinez
"Automata and Biology"
Annual Review of Biophysics and Bioengineering, Vol. 3, 1974,
pp. 255-291
V. Brendel and H.G. Busse
"Genome Structure Described by Formal Languages"
Nucleic Acids Research, Vol. 12, Number 5, 1984, pp. 2561-2567
C. Burks and J.D. Farmer
"Towards Modeling DNA Sequences as Automata"
Physica 10D (1984), pp. 157-167
F.L. Carter
"Prospects for Computation at the Molecular Size Level"
Proceedings of the Spring 1984 COMPCON, pp. 110-114
F.L. Carter
"The Molecular Device Computer: Point of Departure for Large
Scale Cellular Automata"
Physica 10D (1984), pp. 175-194
G.J. Chaitin
"To a Mathematical Definition of 'Life'"
ACM SIGACT News, Jan. 1970, pp. 12-18
G.J. Chaitin
"Toward a Mathematical Definition of 'Life'"
in _The_Maximum_Entropy_Formalism_, ed. by R.D. Levine and M. Tribus,
MIT Press, 1979, pp. 477-498
M. Conrad
"On Design Principles for a Molecular Computer"
Communications of the ACM, May 1985, pp. 464-480
M. Conrad
"Molecular Computer Design: A Synthetic Approach to Brain Theory"
in _Real_Brains_Artificial_Minds_, ed. by J.L. Casti and A. Karlqvist,
North-Holland, 1988(?)
M. Conrad
"The Lure of Molecular Computing"
IEEE Spectrum, Oct. 1986, pp. 55-60
W.F. DeGrado, Z.R. Wasserman, and J.D. Lear
"Protein Design, a Minimalist Approach"
Science, 3 Feb. 1989, pp. 622-243
C. DeLisi
"Computers in Molecular Biology: Current Applications and Emerging
Trends"
Science, 1 April 1988, pp. 47-240
W. Ebeling, R. Feistel, and H. Herzel
"Dynamics and Complexity of Biomolecules"
Physica Scripta, Vol. 35, 1987, pp. 761-768
M. Eigen
"Macromolecular Evolution"
in _Emerging_Syntheses_in_Science_, ed. by D. Pines, Addison-Wesley,
1977, pp. 21-41
J.D. Farmer, S.A. Kaufman, N.H. Packard, and A.S. Perleson
"Adaptive Dynamic Networks as Models for the Immune System and
Autocatalytic Sets"
Annals of the New York Academy of Sciences, Vol. 504, pp. 118-131
J.D. Farmer, S.A. Kaufman, and N.H. Packard
"Autocatalytic Replication of Polymers"
Physica 22D (1986), pp. 50-67
M.W. Feldman
"Evolutionary Theory of Genotypes and Phenotypes: Towards a
Mathematical Synthesis"
in _Emerging_Syntheses_in_Science_, ed. by D. Pines, Addison-Wesley,
1977, pp. 43-52
H. Frauenfelder
"Biomolecules"
in _Emerging_Syntheses_in_Science_, ed. by D. Pines, Addison-Wesley,
1977, pp. 155-165
F. Frohlich
"The Linguistic Structure of the Chromosome Genetic Code and Language"
in _Synergetics:_A_Workshop_, ed. by H. Haken, Springer-Verlag, 1977,
pp. 267-274
E.F. Mallove
"Sequencing the Human Genome: Computers take a Leading Role"
Computers in Scince, Premiere Issue 1987, pp. 41-51
J.A. McCammon
"Computer-Aided Molecular Design"
Science, 23 Oct. 1987, pp. 486-491
J.R. Milch
"Computers Based on Molecular Implementations of Cellular Automata"
in _Molecular_Electronic_Devices_ (Proceedings of the 3rd
International Symposium on Molecular Electronic Devices), ed. by
F.L. Carter, R. Siatkowski, and H. Wohltjen, North-Holland, 1986,
pp. 303-317
M. Radman and R. Wagner
"The High Fidelity of DNA Duplication"
Scientific American, Aug. 1988, pp. 40-46
A.C. Scott
"Solitons in Biological Molecules"
in _Emerging_Syntheses_in_Science_, ed. by D. Pines, Addison-Wesley,
1977, pp. 133-151
D.B. Searls
"Representing Genetic Information with Formal Grammars"
Proceedings of AAAI-88, 1988, pp. 386-391
J.B. Tucker
"Designing Molecules by Computer"
High Technology, Jan. 1984, pp. 52-59
J.B. Tucker
"Biochips: Can Molecules Compute"
High Technology, Feb. 1984, pp. 36-47
J.B. Tucker
"Gene Machines: The Second Wave"
High Technology, Mar. 1984, pp. 50-59
J.B. Tucker
"Proteins to Order"
High Technology, Dec. 1985, pp. 26-44
K.M. Ulmer
"Protein Engineering"
Science, 11 Feb. 1983, pp. 666-671
L.V. Yakushevich
"Nonlinear DNA Dynamics: A New Model"
Physics Letters A, 17 April 1989, pp. 413-417
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End of Reference List
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