Info. Theory Society
• Info. Theory
• Network Coding
• Biology & Info.
• Quantum Info.
If you would like to help us identify a good collection of papers on
a specific topic that would be a good starting point for someone wanting
to do research in a given area, we would very much welcome your input.
Please send us an email.
Today, interdisciplinary research is omnipresent combining scientists from diverse fields with even more diverse background to work collectively on problems that could not be solved within a single discipline simply because the problems studied are, at least to some degree, outside of these traditional fields. This page provides a collection of links to publications, people, conferences and resources that might be useful for people interested in the application of information theory to biological problems to show its utility and power even in such remote fields. The biological problems comprise a far range of subfields of biology whereas the major fields so far are molecular biology and neuroscience.
The title of this page is information theory and biology and not applications of information theory to biological problems because the latter version would be at least misleading. Misleading because it would imply that a complete theoretical framework exists already and one just needs to apply it. Instead, information theory provides a conceptual framework that needs to be adopted to the corresponding problem under consideration properly. This makes it more challenging but also much more exciting.
We hope this page will help to give an overview about the rapidly expanding connection between information theory and biology.
Table of Contents:
Information Theory in Molecular Biology
Physics of Life Reviews 1 3-22 (2004).
N. Ay and D.C. Krakauer
Geometric robustness theory and biological networks
Theory in Biosciences 125(2) 93-121 (2007).
Information Theory and Evolution
World Scientific Publishing (2003).
G. Deco and D. Obradovic
An Information-Theoretic Approach to Neural Computing
G. Deco and B. Schürmann
Information Dynamics: Foundations and Applications
M. Dehnerta, W. E. Helmb and M.-T. Hütt
Information theory reveals large-scale synchronisation of statistical correlations in eukaryote genomes
Gene 345(1) 81-90 (2005).
R. A. Gatenby and R.B. Frieden
Information Theory in Living Systems, Methods, Applications, and Challenges
Bulletin of Mathematical Biology 69(2) 635-657 (2007).
Hazen RM, Griffin PL, Carothers JM, Szostak JW.
Functional information and the emergence of biocomplexity
Proc Natl Acad Sci U S A. 104 Suppl 1:8574-81 (2007).
A. Kocsor, A. Kertesz-Farkas, L. Kajan and S. Pongor
Application of compression-based distance measures to protein sequence classification: a methodological study
Bioinformatics 22(4):407-412 (2006).
Krasnogor, N. and Pelta, D.A.
Measuring the similarity of protein structures by means of the universal similarity metric
Bioinformatics, 20, 1015-1021 (2004).
Li, M. et al.
An information-based sequence distance and its application to whole mitochondrial genome phylogeny
Bioinformatics, 17, 149-154 (2001).
A Margolin, I Nemenman, K Basso, U Klein, C Wiggins, G Stolovitzky, Riccardo D Favera, and A Califano.
ARACNE: An algorithm for reconstruction of genetic networks in a mammalian cellular context
BMC Bioinformatics, 7 (Suppl. 1):S7 (2006).
Information Theory in Biology
University of Illinois Press, Urbana (1953).
M. Rosvall and C. T. Bergstrom
An information-theoretic framework for resolving community structure in complex networks
Proceedings of the National Academy of Sciences USA 104:7327-7331 (2007).
Martin Rosvall and Kim Sneppen
Self-Assembling of information in networks
Europhys. Lett. 74:1109 (2006).
F. Rieke, D. Warland, R. deRuytervanSteveninck, W. Bialek
Spikes: Exploring the Neural Code
MIT Press (1999).
Schneider T.D., G.D. Stormo, L. Gold, and A. Ehrenfeucht
Information content of binding sites on nucleotide sequences
J. Mol. Biol. 188:415-431 (1986).
John Maynard Smith
The Idea of Information in Biology
The Quarterly Review of Biology, 74(4), 395-400 (1999).
G. Tkacik, C.G. Callan Jr. and W. Biallek
Information flow and optimization in transcriptional control
q-Bio.MN arXiv:0705.0313 (2007).
A. Trusina, M. Rosvall and K. Sneppen
Communication Boundaries in Networks
Phys. Rev. Lett. 94:238701 (2004).
An application of information theory to the Central Dogma and the sequence hypothesis
Journal of Theoretical Biology 46: 369-406 (1974).
Information Theory and Molecular Biology
Cambridge: Cambridge University Press (1992).
If you have some question regarding this page or want to contribute some information just send an email to Frank Emmert-Streib.