IEEE Information Theory Student Resources

	IEEE Information Theory Society Student Resources
	Getting Started on a Research Problem

Home • Student Resources • Info. Theory Society • Media Services Committee Events • Future Events • Past Events Volunteering Getting Started • Info. Theory Textbook • Info. Theory Tutorials • Interference Channel • Comm. Networks • Cooperative Comm. • Cryptography • Multiuser Info. Theory • Network Coding • Biology & Info. Theory • Quantum Info. Theory Doctoral Dissertations Finding Your Career • Job Resources • Job Opportunities • Pool of Candidates Useful Links • Writing Papers • Journals • Conferences • Resources Committee Members	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. Biology and Information Theory 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: Publications People Conferences Resources Publications C. Adami 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). J. Avery Information Theory and Evolution World Scientific Publishing (2003). G. Deco and D. Obradovic An Information-Theoretic Approach to Neural Computing Springer (1997). G. Deco and B. Schürmann Information Dynamics: Foundations and Applications Springer (2000). 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). H. Quastler 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). Yockey, H.P. An application of information theory to the Central Dogma and the sequence hypothesis Journal of Theoretical Biology 46: 369-406 (1974). Yockey, H.P. Information Theory and Molecular Biology Cambridge: Cambridge University Press (1992). People Chris Adami Shun-ichi Amari Gil Alterovitz Nihat Ay Carl Bergstrom William Bialek Todd P. Coleman Gustavo Deco Matthias Dehmer Frank Emmert-Streib Jürgen Jost Michael Lachmann Ming Li Ilya Nemenman Daniel Polani Tom Schneider Wojciech Szpankowski Naftali Tishby Conferences ITSL'08: Information Theory and Statistical Learning CISS 2007: Conference on Information Sciences and Systems BIOCOMP'07 Workshop: Methods of Information Theory in Computational Neuroscience q-bio Conference on Cellular Information Processing Resources A Glossary for Molecular Information Theory Modeling dynamics of Information Networks Questions? If you have some question regarding this page or want to contribute some information just send an email to Frank Emmert-Streib.