Searching journal content for articles similar to Howe et al. 12 (9): 1418.

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  1. Methods: Conrad: Gene prediction using conditional random fields
    • David DeCaprio,
    • Jade P. Vinson,
    • Matthew D. Pearson,
    • Philip Montgomery,
    • Matthew Doherty,
    • and James E. Galagan
    Genome Res. September 2007 17: 1389-1398; Published in Advance August 9, 2007, doi:10.1101/gr.6558107
    ...attempted. The gene predictor GAZE ( Howe et al. 2002 ) uses the same concepts as CRFs but is based on a much earlier theoretical framework of conditional maximum likelihood ( Stormo and Haussler 1994 ). Culotta et al. (2005) performed a proof-of-concept study using standard CRFs, and Gross et al. (2006...
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  2. Methods: Computational Gene Prediction Using Multiple Sources of Evidence
    • Jonathan E. Allen,
    • Mihaela Pertea,
    • and Steven L. Salzberg
    Genome Res. January 2004 14: 142-148; doi:10.1101/gr.1562804
    ...improve annotation. Genome Biol. 3 : RESEARCH0029. ↵ Howe, K.L., Chothia, T., and Durbin, R. 2002 . GAZE: A generic framework for the integration of gene-prediction data by dynamic programming. Genome Res. 12 : 1418 -1427. ↵ Huang, X., Adams, M.D., Zhou, H., and Kerlavage, A.R. 1997 . A tool for analyzing...
  3. Method: GeneMark-ETP significantly improves the accuracy of automatic annotation of large eukaryotic genomes
    • Tomáš Brůna,
    • Alexandre Lomsadze,
    • and Mark Borodovsky
    Genome Res. May 2024 34: 757-768; Published in Advance June 12, 2024, doi:10.1101/gr.278373.123
    ...to motivate the creation of new gene-finding methods for more than two decades, for example, GAZE (Howe et al. 2002), Combiner (Allen et al. 2004), JIGSAW (Allen and Salzberg 2005), Evigan (Liu et al. 2008), EVidenceModeler (Haas et al. 2008), MAKER2 (Holt and Yandell 2011), IPred (Zickmann and Renard 2015...
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  4. RESOURCE: Closing in on the C. elegans ORFeome by cloning TWINSCAN predictions
    • Chaochun Wei,
    • Philippe Lamesch,
    • Manimozhiyan Arumugam,
    • Jennifer Rosenberg,
    • Ping Hu,
    • Marc Vidal,
    • and Michael R. Brent
    Genome Res. April 2005 15: 577-582; doi:10.1101/gr.3329005
    ..., J.L., Temple, G.F., and Brasch, M.A. 2000 . DNA cloning using in vitro site-specific recombination. Genome Res. 10 : 1788 -1795. ↵ Howe, K.L., Chothia, T., and Durbin, R. 2002 . GAZE: A generic framework for the integration of gene-prediction data by dynamic programming. Genome Res. 12 : 1418 -1427...
  5. ENSEMBL Special: GeneWise and Genomewise
    • Ewan Birney,
    • Michele Clamp,
    • and Richard Durbin
    Genome Res. May 2004 14: 988-995; doi:10.1101/gr.1865504
    .... Dynamic programming alignment accuracy. J. Comp. Biol. 5 : 493 -504. ↵ Howe, K.L., Chothia, T., and Durbin, R. 2002 . GAZE: A generic framework for the integration of gene-prediction data by dynamic programming. Genome Res. 12 : 1418 -1427. ↵ The International Human Genome Sequencing Consortium 2001...
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