>MIT 10.555: bioinformatics_methods|principles|applications

>spring 2003

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>papers

  • I. Rigoutsos and A. Floratos. "Combinatorial pattern discovery in biological sequences: the TEIRESIAS algorithm." Bioinformatics. Vol. 14, No. 1: 1998, pp. 55-67.
  • I. Rigoutsos, A. Floratos, L. Parida, Y. Gao, D. Platt. "The Emergence Of Pattern Discovery Techniques In Computational Biology." Metabolic Engineering. 2(3): July 2000, pp. 159-177.
  • T. Shibuya and I. Rigoutsos. "Dictionary-driven prokaryotic gene finding." Nucleic Acids Research. Vol. 30, No. 12: 2002, pp. 2710-2725.
  • I. Rigoutsos, T. Huynh, A. Floratos, L. Parida, D. Platt. "Dictionary-driven protein annotation." Nucleic Acids Research. Vol. 30, No. 17: 2002, pp. 3901-3916.
  • I. Rigoutsos, J. Novotny, T. Huynh, S. T. Chin-Bow, L. Parida, D. Platt, D. Coleman, T. Shenk. "In Silico Pattern-Based Analysis of the Human Cytomegalovirus Genome." Journal of Virology. Vol. 77, No. 7: 2002, pp. 4326-4344.
  • "Computational Biology." Nature Insight. November 14, 2002.
  • >links

    >references

    • Algorithms on Strings, Trees and Sequences: Computer Science and Computational Biology, D. Gusfield, Cambridge University Press, ISBN: 0521585198
    • Fundamental Concepts of Bioinformatics, D.E. Krane and M.L. Raymer, Benjamin Cummings, ISBN: 0-8053-4633-3 (2003)
    • Introduction to Probability, D.P. Bertsekas, and J.N. Tsitsiklis, Athena Scientific, ISBN: 1-886529-40-X (2002)
    • Genetics, a Molecular Approach, T.A.Brown, Chapman & Hall, ISBN: 0412447304
    • Introduction to Computational Molecular Biology, J.Setubal and J.Meidanis, PWS Publishing Company, ISBN: 0534952623
    • Bioinformatics: A Practical Guide to the Analysis of Genes and Proteins, A.D.Baxevanis and B.F.F.Ouellette, Wiley-Interscience, ISBN: 0471191965
    • Bioinformatics: The Machine Learning Approach, P. Baldi and S. Brunal, MIT Press, ISBN: 0-262-02442-X
    • Introduction to Computational Biology: Maps, Sequences, Genomes, M.S.Waterman, Chapman & Hall, ISBN: 0412993910
    • Biological Sequence Analysis: Probabilistic Models of proteins and Nucleic Acids, R. Durbin, S. Eddy, A. Krogh, G. Mitchison, Cambridge University Press, ISBN: 0-521-62041
    • Bioinformatics: Methods and Protocols, S. Misener and S.A. Krawetz (editors), Humana Press, ISBN: 0-89603-732-0
    • Bioinformatics Basics: Applications in Biological Science and Medicine, H.H. Rashidi and L.K. Buehler, CRC Press, ISBN: 0-8493-2375-4
    • Introduction to Protein Structure, C.Branden and J.Tooze, Garland Publishing Inc., ISBN: 0815302703
    • Molecular Biotechnology: Principles and Applications of Recombinant DNA, B.R.Glick and J.JPasternak, ASM Press, ISBN: 1555811361
    • Introduction to Proteins and Protein Engineering, B.Robson and J.Garnier, Elsevier Science Publishers, ISBN: 0444810471
    • Computational Molecular Biology: An algorithmic approach, Pavel Pevzner, MIT Press, ISBN: 0262161974
    • Metabolic Engineering: Principles and Methodologies, G. Stephanopoulos, A. Aristidou and J. Nielsen, Academic Press, ISBN: 0-12-666260-6 Molecular Evolution :A Phylogenetic Approach (1998) by R.D. M. Page & E.C. Holmes.
    • Molecular Evolution :A Phylogenetic Approach (1998) by R.D. M. Page &  E.C. Holmes.  Blackwell Science Inc;  ISBN: 0865428891 Easy read, nice introduction
    • Molecular Evolution (1997)   by Wen-Hsiung Li Sinauer Assoc; ISBN: 0878934634 More Detailed than Page and Holmes
    • Human Molecular Genetics (1999)  by Tom Strachan, Andrew P. Read Wiley-Liss; ISBN: 0471330612 Well written human genetics text
    • Bioinformatics: Sequence and Genome Analysis  by David W. Mount Cold Spring Harbor Laboratory;  ISBN: 0879696087 Basic Bioinformatics Text - Easy to follow for Biologist
    • Important web site for human genetics and disease is OMIM Online Medelian Inheritance in Man      http://www3.ncbi.nlm.nih.gov/omim/

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