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Tcoffee@igs: a web server for computing, evaluating and combining multiple sequence alignments

Tcoffee@igs: a web server for computing, evaluating and combining multiple sequence alignments. Olivier Poirot, Eamonn O'Toole and Cedric Notredame Nucleic Acids Research, 31, 3503-3506 (2003) July 22, 2003 Park, Ji-Yoon. Abstract. Tcoffee@igs

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Tcoffee@igs: a web server for computing, evaluating and combining multiple sequence alignments

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  1. Tcoffee@igs: a web server for computing, evaluating and combining multiple sequence alignments Olivier Poirot, Eamonn O'Toole and Cedric Notredame Nucleic Acids Research, 31, 3503-3506 (2003)July 22, 2003 Park, Ji-Yoon

  2. Abstract • Tcoffee@igs • Web-based tool to the computation, the evaluation & combination of multiple alignment • The latest version of the T-Coffee package • Provided by Hewlet Packard & Centre National de la Recherche Scientifique • Can be used for align protein, RNA or DNA • 100 sequences (2,000 residues long) process available

  3. Related Publication • T-Coffee: A novel method for multiple sequence alignments.C.Notredame, D. Higgins, J. Heringa,Journal of Molecular Biology,Vol 302, pp205-217,2000 [pdf] • COFFEE: A New Objective Function For Multiple Sequence Alignmnent.C. Notredame, L. Holme and D.G. Higgins, Bioinformatics,Vol 14 (5) 407-422,1998 [pdf]

  4. http://igs-server.cnrs-mrs.fr/

  5. Tcoffee

  6. Methods • Multiple sequence alignment assembly- Given a set of pre-selected protein or DNA seq, computes a multiple seq alignment of the input sequences- By computing a collection of pair-wise alignment [ the best global alignment & 10 best local alignment ]- The highest level of consistency with alignment within the library • Computing a multiple alignment - FASTA form sequence • Evaluating a multiple alignment - evaluate pre-computed multiple sequence alignment IV. Combine multiple alignments

  7. Output of T-Coffee Computation

  8. Colored Output of T-Coffee

  9. Conclusion & Future Developments • Tcoffee@igs • A new multiple sequence alignment server • To produce high quality multiple sequence alignment • Further development - Enhanced regarding the mixing of sequences & structure

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