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- Arrhenius et al., 1986
-
Arrhenius, T. S., Blanchard-Desce, M., Dvolaitzky, M., Lehn, J. & Malthete,
J. (1986).
Molecular devices: caroviologens as an approach to molecular
wires--synthesis and incorporation into vesicle membranes.
Proc. Natl. Acad. Sci. USA, 83, 5355-5359.
- Atkins, 1984
-
Atkins, P. W. (1984).
The Second Law.
W. H. Freeman and Co., N. Y.
- Beaucage & Caruthers, 1981
-
Beaucage, S. L. & Caruthers, M. H. (1981).
Deoxynucleoside phosphoramidites - a new class of key intermediates
for deoxypolynucleotide synthesis.
Tetrahedron Letters, 22, 1859-1862.
- Bennett, 1973
-
Bennett, C. H. (1973).
Logical reversibility of computation.
IBM J. Res. Develop. 17, 525-532.
- Bennett, 1982
-
Bennett, C. H. (1982).
The thermodynamics of computation - a review.
Int. J. Theor. Phys. 21, 905-940.
- Bennett, 1987
-
Bennett, C. H. (1987).
Demons, engines and the Second Law.
Sci. Am. 257 (5), 108-116.
- Bennett & Landauer, 1985
-
Bennett, C. H. & Landauer, R. (1985).
The fundamental physical limits of computation.
Sci. Am. 253 (1), 48-56.
- Bharath, 1987
-
Bharath, R. (1987).
Information theory.
Byte, 12 (14), 291-298.
- Brillouin, 1951a
-
Brillouin, L. (1951a).
Maxwell's daemon cannot operate: information and entropy. I.
J. of Applied Physics, 22, 334-337.
- Brillouin, 1951b
-
Brillouin, L. (1951b).
Physical entropy and information. II.
J. of Applied Physics, 22, 338-343.
- Brillouin, 1962
-
Brillouin, L. (1962).
Science and Information Theory.
second edition, Academic Press, Inc., New York.
- Britten & Kohne, 1968
-
Britten, R. J. & Kohne, D. E. (1968).
Repeated sequences in DNA.
Science, 161, 529-540.
- Callen, 1985
-
Callen, H. B. (1985).
Thermodynamics and an Introduction to Thermostatistics.
second edition, John Wiley & Sons, Ltd., N. Y.
- Carter, 1984
-
Carter, F. L. (1984).
The molecular device computer: point of departure for large scale
cellular automata.
Physica D, 10, 175-194.
- Castellan, 1971
-
Castellan, G. W. (1971).
Physical Chemistry.
second edition, Addison-Wesley Publishing Company, Reading, Mass.
- Conrad, 1985
-
Conrad, M. (1985).
On design principles for a molecular computer.
Comm. ACM, 28 (5), 464-480.
- Conrad, 1986
-
Conrad, M. (1986).
The lure of molecular computing.
IEEE Spectrum, 23 (10), 55-60.
- Drexler, 1981
-
Drexler, K. E. (1981).
Molecular engineering: an approach to the development of general
capabilities for molecular manipulation.
Proc. Natl. Acad. Sci. USA, 78, 5275-5278.
- Drexler, 1986
-
Drexler, K. E. (1986).
Engines of Creation.
Anchor Press, Garden City, New York.
- Ehrenberg, 1967
-
Ehrenberg, W. (1967).
Maxwell's demon.
Sci. Am. 217 (5), 103-110.
- Eigler & Schweizer, 1990
-
Eigler, D. M. & Schweizer, E. K. (1990).
Positioning single atoms with a scanning tunnelling microscope.
Nature, 344, 524-526.
- Feld & Szilard, 1972
-
Feld, B. T. & Szilard, G. W. (1972).
The Collected Works of Leo Szilard: Scientific Papers.
The MIT Press, London.
- Feynman, 1961
-
Feynman, R. P. (1961).
There's plenty of room at the bottom.
In Miniaturization, (Gilbert, H. D., ed.), pp. 282-296,
Reinhold Publishing Corporation, New York.
- Feynman, 1987
-
Feynman, R. P. (1987).
Tiny computers obeying quantum mechanical laws.
In New Directions in Physics: The Los Alamos 40th Anniversary
Volume, (Metropolis, N., Kerr, D. M. & Rota, G., eds), pp. 7-25, Academic
Press, Inc., Boston.
- Gersting, 1986
-
Gersting, J. L. (1986).
Mathematical structures for computer science.
second edition, W. H. Freeman and Co., New York.
- Haddon & Lamola, 1985
-
Haddon, R. C. & Lamola, A. A. (1985).
The molecular electronic device and the biochip computer: present
status.
Proc. Natl. Acad. Sci. USA, 82, 1874-1878.
- Hastings & Waner, 1985
-
Hastings, H. M. & Waner, S. (1985).
Low dissipation computing in biological systems.
BioSystems, 17, 241-244.
- Heitman et al., 1989
-
Heitman, J., Zinder, N. D. & Model, P. (1989).
Repair of the Escherichia coli chromosome after in
vivo scission by the EcoRI endonuclease.
Proc. Natl. Acad. Sci. USA, 86, 2281-2285.
- Hobson, 1971
-
Hobson, A. (1971).
Concepts in Statistical Mechanics.
Gordon and Breach Science Publishers, New York.
- Hong, 1986
-
Hong, F. T. (1986).
The bacteriorhodopsin model membrane system as a prototype molecular
computing element.
BioSystems, 19, 223-236.
- Hopfield et al., 1988
-
Hopfield, J. J., Onuchic, J. N. & Beratan, D. N. (1988).
A molecular shift register based on electron transfer.
Science, 241, 817-820.
- Jaynes, 1988
-
Jaynes, E. T. (1988).
The evolution of Carnot's principle.
In Maximum-Entropy and Bayesian Methods in Science and
Engineering, (Erickson, G. J. & Smith, C. R., eds), vol. 1, pp. 267-281,
Kluwer Academic Publishers, Dordrecht, The Netherlands.
http://bayes.wustl.edu/etj/articles/ccarnot.ps.gz
http://bayes.wustl.edu/etj/articles/ccarnot.pdf.
- Keyes, 1970
-
Keyes, R. W. (1970).
Power dissipation in information processing.
Science, 168, 796-801.
- Keyes, 1989
-
Keyes, R. W. (1989).
Making light work of logic.
Nature, 340, 19.
- Keyes & Landauer, 1970
-
Keyes, R. W. & Landauer, R. (1970).
Minimal energy dissipation in logic.
IBM J. Res. Dev. 14, 152-157.
- Landauer, 1961
-
Landauer, R. (1961).
Irreversibility and heat generation in the computing process.
IBM J. Res. Dev. 5, 183-191.
- Landauer, 1988
-
Landauer, R. (1988).
Dissipation and noise immunity in computation and communication.
Nature, 335, 779-784.
- Lesk, 1988
-
Lesk, A. M. (1988).
Introduction: protein engineering.
BioEssays, 8, 51-52.
- Maniatis et al., 1982
-
Maniatis, T., Fritsch, E. F. & Sambrook, J. (1982).
Molecular Cloning, A Laboratory Manual.
Cold Spring Harbor Laboratory, Cold Spring Harbor, New York.
- Maxwell, 1904
-
Maxwell, J. C. (1904).
Theory of Heat.
Longmans, Green and Co., London.
- Mayer et al., 1985
-
Mayer, D. F., Mauldin, J. H., Bennett, C. H. & Landauer, R. (1985).
Letters.
Sci. Am. 253 (4), 6-9.
- McClare, 1971
-
McClare, C. W. F. (1971).
Chemical machines, Maxwell's demon and living organisms.
J. Theor. Biol. 30, 1-34.
- Pabo, 1983
-
Pabo, C. (1983).
Molecular technology: designing proteins and peptides.
Nature, 301, 200.
- Pierce, 1980
-
Pierce, J. R. (1980).
An Introduction to Information Theory: Symbols, Signals and
Noise.
second edition, Dover Publications, Inc., New York.
- Pierce & Cutler, 1959
-
Pierce, J. R. & Cutler, C. C. (1959).
Interplanetary communications.
In Advances in Space Science, Vol. 1, (Ordway, III, F. I.,
ed.), pp. 55-109, Academic Press, Inc., N. Y.
- Popper, 1967a
-
Popper, K. R. (1967a).
Time's arrow and feeding on negentropy.
Nature, 213, 320.
- Popper, 1967b
-
Popper, K. R. (1967b).
Structural information and the arrow of time.
Nature, 214, 322.
- Porod et al., 1984
-
Porod, W., Grondin, R. O., Ferry, D. K. & Porod, G. (1984).
Dissipation in computation.
Physical Review Letters, 52, 232-235.
- Raisbeck, 1963
-
Raisbeck, G. (1963).
Information Theory.
Massachusetts Institute of Technology, Cambridge, Massachusetts.
- Rastetter, 1983
-
Rastetter, W. H. (1983).
Enzyme engineering.
Appl. Biochem. and Biotech. 8, 423-436.
- Roberts, 1989
-
Roberts, R. J. (1989).
Restriction enzymes and their isochizomers.
Nucl. Acids Res., Supplement, 17, r347-r387.
- Robinson, 1984
-
Robinson, A. L. (1984).
Computing without dissipating energy.
Science, 223, 1164-1166.
- Rothstein, 1951
-
Rothstein, J. (1951).
Information, measurement, and quantum mechanics.
Science, 114, 171-175.
- Ryan, 1975
-
Ryan, J. P. (1975).
Aspects of the Clausius-Shannon identity: emphasis on the
components of transitive information in linear, branched and composite
physical systems.
Bull. of Math. Biol. 37, 223-254.
- Ryan, 1972
-
Ryan, J. P. F. J. (1972).
Information, entropy and various systems.
J. Theor. Biol. 36, 139-146.
- Schilling et al., 1989
-
Schilling, D. L., Belove, C., Apelewicz, T. & Saccardi, R. J. (1989).
Electronic circuits, discrete and integrated.
third edition, McGraw-Hill, New York.
- Schneider, 1991
-
Schneider, T. D. (1991).
Theory of molecular machines. I. Channel capacity of molecular
machines.
J. Theor. Biol. 148, 83-123.
http://www.lecb.ncifcrf.gov/~toms/paper/ccmm/.
- Schneider & Stormo, 1989
-
Schneider, T. D. & Stormo, G. D. (1989).
Excess information at bacteriophage T7 genomic promoters detected
by a random cloning technique.
Nucl. Acids Res. 17, 659-674.
- Schneider et al., 1986
-
Schneider, T. D., Stormo, G. D., Gold, L. & Ehrenfeucht, A. (1986).
Information content of binding sites on nucleotide sequences.
J. Mol. Biol. 188, 415-431.
- Shannon, 1948
-
Shannon, C. E. (1948).
A mathematical theory of communication.
Bell System Tech. J. 27, 379-423, 623-656.
http://cm.bell-labs.com/cm/ms/what/shannonday/paper.html.
- Shannon, 1949
-
Shannon, C. E. (1949).
Communication in the presence of noise.
Proc. IRE, 37, 10-21.
- Shannon & Weaver, 1949
-
Shannon, C. E. & Weaver, W. (1949).
The Mathematical Theory of Communication.
University of Illinois Press, Urbana.
- Smith, 1979
-
Smith, H. O. (1979).
Nucleotide sequence specificity of restriction endonucleases.
Science, 205, 455-462.
- Szilard, 1929
-
Szilard, L. (1929).
Uber die entropieverminderung in einem thermodynamischen system bei
eingriffen intelligenter wesen.
Z. Phys. 53, 840-856.
- Szilard, 1964
-
Szilard, L. (1964).
On the decrease of entropy in a thermodynamic system by the
intervention of intelligent beings.
Behavioral Science, 9, 301-310.
- Thomas, 1968
-
Thomas, G. B. (1968).
Calculus and Analytic Geometry.
fourth edition, Addison-Wesley, Reading, Mass.
- Tribus & McIrvine, 1971
-
Tribus, M. & McIrvine, E. C. (1971).
Energy and information.
Sci. Am. 225 (3), 179-188.
(Note: the table of contents in this volume incorrectly lists this
as volume 224).
- Ulmer, 1983
-
Ulmer, K. M. (1983).
Protein engineering.
Science, 219, 666-671.
- von Neumann, 1963
-
von Neumann, J. (1963).
Probabilistic logics and the synthesis of reliable organisms from
unreliable components.
In Collected works, (Taub, A. H., ed.), vol. 5, pp. 341-342,
The MacMillan Company, New York.
- von Neumann, 1966
-
von Neumann, J. (1966).
Fourth University of Illinois lecture.
In Theory of Self-Reproducing Automata, (Burks, A. W., ed.),
pp. 66-67, University of Illinois Press, Urbana.
- Wait, 1967
-
Wait, J. V. (1967).
Symbolic logic and practical applications.
In Digital Computer User's Handbook, (Klerer, M. & Korn,
G. A., eds), pp. 4-3 to 4-28 show that NAND is sufficient, McGraw-Hill Book
Company, Inc., N. Y.
- Waldram, 1985
-
Waldram, J. R. (1985).
The Theory of Thermodynamics.
Cambridge University Press, Cambridge.
- Watson et al., 1987
-
Watson, J. D., Hopkins, N. H., Roberts, J. W., Steitz, J. A. & Weiner, A. M.
(1987).
Molecular Biology of the Gene.
fourth edition, The Benjamin/Cummings Publishing Co., Inc., Menlo
Park, California.
- Weast et al., 1988
-
Weast, R. C., Astle, M. J. & Beyer, W. H. (1988).
CRC Handbook of Chemistry and Physics.
CRC Press, Inc., Boca Raton, Florida.
- Wetzel, 1986
-
Wetzel, R. (1986).
What is protein engineering?
Protein Engineering, 1, 3-5.
- Wilson, 1968
-
Wilson, J. A. (1968).
Increasing entropy of biological systems. Entropy, not negentropy.
Nature, 219, 534-536.
Tom Schneider
1999-12-24