Below is a non-exhaustive sample list of papers relevant to the themes in the
Information-theoretic approaches to biology track
--------------------------------------------------
at the 4th Pacific Symposium on BioComputing,
-------------------------------------
Mauni Lani, Big Island of Hawaii, HI, U.S.A., 4 - 9 Jan. 1999.
D L Dowe, L Allison, T I Dix, L Hunter, C S Wallace and T Edgoose (1996):
Circular clustering of protein dihedral angles by Minimum Message Length,
First Pacific symposium on biocomputing (PSB-1),
Hawaii, U.S.A., pp 242-55 (1996).
D. L. Dowe, G. E. Farr, A. J. Hurst and K. L. Lentin (1996):
"Information-theoretic football tipping",
in N. de Mestre (ed.), 3rd Conference on Mathematics and Computers in
Sport, Bond University, Qld, Australia, 233-241, 1996.
www.csse.monash.edu.au/~footy
D L Dowe, J J Oliver, T I Dix, L Allison and C S Wallace (1993):
A decision graph explanation of protein secondary structure prediction,
Proc. 26th Hawaii Int. Conf. on System Sciences (HICSS-26),
Hawaii, Vol. 1, pp669-678 (1993).
Prank K, Nowlan SJ, Harms HM, Kloppstech M, Brabant G, Hesch RD,
Sejnowski TJ. Time series prediction of plasma hormone concentration:
Evidence for differences in predictability of parathyroid hormone
secretion between osteoporotic patients and normal controls. Journal
of Clinical Investigation 95:2910-2919 (1995).
Prank K, Kloppstech M, Nowlan SJ, Sejnowski TJ, Brabant G. Self-Organized
segmentation of time series: Separating growth hormone secretion in
acromegaly from normal controls. Biophysical Journal 70:2540-2547 (1996a).
Prank K, Kloppstech M, Nowlan SJ, Sejnowski TJ, Brabant G. Random secretion
of growth hormone in humans. Physical Review Letters 77:1909-1911 (1996b).
Prank K, Wagner M, Brabant G. Algorithmic complexity of growth hormone
release in humans. In: Biocomputing, Proceedings of the 1997 Pacific
Symposium, eds. Russ B. Altman, A. Keith Dunker, Lawrence Hunter,
Teri E. Klein, World Scientifc, Singapore, pp. 352-360 (1996c).
Garnier-Osguthorpe-Robson, GOR method of protein secondary structure prediction.
K. Yamanishi, Proc. 26th Hawaii Int. Conf. on System Sciences (HICSS-26),
Hawaii, Vol. 1, 1993.
D. M. Platt and T. I. Dix, A model for comparing genomic restriction maps,
Proc. 28th Hawaii Int. Conf. on System Sciences (HICSS-28), Vol 1, pp24-31,
1995.
D. M. Platt and T. I. Dix, Stochastic assembly of Contig restriction maps,
Proc. 28th Hawaii Int. Conf. on System Sciences (HICSS-28), Vol 1, pp155-164,
1995.
L. Allison and C. S. Wallace (e.g., J. Mol. Ev., 1994) on string alignment.
Konagaya, A, Kondou, H. Stochastic motif extraction using a genetic algorithm
with the MDL principle. HICSS-26, 746-755 (1993).
Mainen ZF, Sejnowski TJ. Influence of dentritic structure on firing pattern
in model neocortical neurons. Nature 382:363-366 (1996).
Malinow R, Mainen ZF. Long-term potentiation in the CA1 hippocampus.
Science 271:1604-1605 (1996).
Mainen ZF, Joerges J, Huguenard JR, Sejnowski TJ. A model of spike
initiation in neocortical pyramidal neurons. Neuron 15:1427-1439 (1995).
Mainen ZF, Sejnowski TJ. Reliability of spike timing in neocortical
neurons. Science 268:1503-1506 (1995).
Gabbiani F, Koch C. Coding of time-varying signals in spike trains
of intergrate-and-fire neurons with random threshold. Neural Computation
8:44-66 (1996).
Gabbiani F, Metzner W, Wessel R, Koch C. From stimulus encoding to feature
extraction in weakly electric fish. Nature 384:564-567 (1996).
Mamitsuka, H, Yamanishi, K. Protein alpha-Helix region prediction based
on stochastic-rule learning. HICSS-26, 659-668 (1993).
Milosavljevic, A. and Jurka, J.,
"Discovering simple DNA sequences by the algorithmic significance method",
Computer Applications in the Biosciences, vol. 9, no. 4, 1993, pp 407-411.
Rapp PE, Zimmerman ID, Vining EP, Cohen N, Albano AM, Jimenez-Montano MA.
The algorithmic complexity of neural spike trains increases during focal
seizures. The Journal of Neurosciences 14:4731-4739 (1994).
Rieke F, Warland D, van Steveninck RRD, Bialek W. Spikes: Exploring the
neural code, MIT Press, Cambridge, MA (1996).
Rivals, E. and Delgrange, O. and Delahaye, J.-P. and Dauchet,
M. and Delorme, M.-O. and H{`e}naut, A. and Ollivier, E.,
"Detection of significant patterns by compression algorithms:
the case of approximate tandem repeats in {D}{N}{A} sequences",
Computer Applications in the Biosciences, vol. 13, issue 2,
pp 131-136, 1997.
Solomonoff, R.J., "A formal theory of inductive inference",
Information and Control, vol. 7, pp 1-22, 224-254, 1964.
Kolmogorov, A.N., "Three approaches to the quantitative definition of
information", Problems of Information Transmission, vol. 1, pp 4-7, 1965.
Chaitin, G.J., On the Length of Programs for Computing Finite Sequences,
Journal of the Association for Computing Machinery, vol. 13, pp 547-549, 1966.
Wallace C.S. & Boulton, D.M., `An Information Measure for Classification',
Computer Journal, Vol.11, No.2, 1968, pp185-194.
Akaike, H., "Information Theory and an extension of the maximum
likelihood principle", in Petrov, B.N. and Csaki, F. (ed.),
Proceedings of the 2nd International Symposium on Information Theory,
1973, pp 267-281,
J. J. Rissanen, "Modeling by shortest data description",
Automatica, vol. 14, 1978, pp 465-471.
A. Arkin (Stanford), "Computation in genetic networks", ICOBIP '97
(International Conference on Biological Information Processing,
http://sun1.rrzn-user.uni-hannover.de/~ndxdendo/ICOBIP97.html).
T.J. Sejnowski (San Diego), "Timing in cortical information processing",
ICOBIP '97 (International Conference on Biological Information Processing,
http://sun1.rrzn-user.uni-hannover.de/~ndxdendo/ICOBIP97.html).
See also the "Complexity and information-theoretic approaches to biology"
track organised by D L Dowe and K Prank at the
3rd Pacific Symposium on Biocomputing (PSB-98), Hawaii, U.S.A., January 1998;
pp559-680.
As above, this sample list is non-exhaustive.
^^^^^^ ^^^^^^^^^^^^^^
For more information on the "Complexity and information-theoretic approaches
to biology" stream, see
http://www.csse.monash.edu.au/~dld/PSB99/PSB99.Info.CFPs.html
(or e-mail Dr. David Dowe, dld@cs.monash.edu.au
or Dr. Klaus Prank, ndxdpran@rrzn-user.uni-hannover.de ).
For more information on the "4th Pacific Symposium on BioComputing conference"
(PSB99, 1999), see http://www.cgl.ucsf.edu/psb/cfp.html .