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BMC Bioinformatics

Volume 7 Supplement 1

NIPS workshop on New Problems and Methods in Computational Biology

Proceedings

Edited by Gal Chechik, Christina Leslie, Gunnar Rätsch, Koji Tsuda

NIPS workshop on New Problems and Methods in Computational Biology.

Whistler, Canada18 December 2004

  1. Content type: Proceedings

    Prediction of human cell response to anti-cancer drugs (compounds) from microarray data is a challenging problem, due to the noise properties of microarrays as well as the high variance of living cell response...

    Authors: Tsuyoshi Kato, Yukio Murata, Koh Miura, Kiyoshi Asai, Paul B Horton, Koji Tsuda and Wataru Fujibuchi

    Citation: BMC Bioinformatics 2006 7(Suppl 1):S4

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  2. Content type: Proceedings

    We have recently introduced a predictive framework for studying gene transcriptional regulation in simpler organisms using a novel supervised learning algorithm called GeneClass. GeneClass is motivated by the ...

    Authors: Anshul Kundaje, Manuel Middendorf, Mihir Shah, Chris H Wiggins, Yoav Freund and Christina Leslie

    Citation: BMC Bioinformatics 2006 7(Suppl 1):S5

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  3. Content type: Proceedings

    Elucidating gene regulatory networks is crucial for understanding normal cell physiology and complex pathologic phenotypes. Existing computational methods for the genome-wide "reverse engineering" of such netw...

    Authors: Adam A Margolin, Ilya Nemenman, Katia Basso, Chris Wiggins, Gustavo Stolovitzky, Riccardo Dalla Favera and Andrea Califano

    Citation: BMC Bioinformatics 2006 7(Suppl 1):S7

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  4. Content type: Proceedings

    Sequence homologs are an important source of information about proteins. Amino acid profiles, representing the position-specific mutation probabilities found in profiles, are a richer encoding of biological se...

    Authors: Sean O'Rourke, Gal Chechik, Robin Friedman and Eleazar Eskin

    Citation: BMC Bioinformatics 2006 7(Suppl 1):S8

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  5. Content type: Proceedings

    Support Vector Machines (SVMs) – using a variety of string kernels – have been successfully applied to biological sequence classification problems. While SVMs achieve high classification accuracy they lack int...

    Authors: Gunnar Rätsch, Sören Sonnenburg and Christin Schäfer

    Citation: BMC Bioinformatics 2006 7(Suppl 1):S9

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  6. Content type: Proceedings

    Biologists regularly search DNA or protein databases for sequences that share an evolutionary or functional relationship with a given query sequence. Traditional search methods, such as BLAST and PSI-BLAST, fo...

    Authors: Jason Weston, Rui Kuang, Christina Leslie and William Stafford Noble

    Citation: BMC Bioinformatics 2006 7(Suppl 1):S10

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