computational gene recognition

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+ 1993

  1. MS Boguski, TMJ Lowe, CM Tolstoshev (1993), "dbEST - database for 'expressed sequence tags' ", Nature Genetics, 4: 332-333.

  2. M Borodovsky, J McIninch (1993) , "GENMARK: parallel gene recognition for both DNA strands", Computers & Chemistry, 17(2): 123-134
    [supplement material: http://genemark.biology.gatech.edu/GeneMark (GENEMARK), and manual page (v2.1) ]

  3. M Borodovsky, J McIninch (1993) , "Recognition of genes in DNA sequence with ambiguities", Biosystems, 30(1-3):161-171. [ abstract]

  4. translation
    CM Brown, ME Dalphin, PA Stockwell, WP Tate (1993), "The translational termination signal database", Nucleic Acids Research, 21, 3119-3123.

  5. similarity
    JM Claverie (1993), "Detecting frame shifts by amino acid sequence comparison", Journal of Molecular Biology, 234:1140-1157.
    [ abstract]

  6. JW Fickett, R Guigo (1993) , "Estimation of protein coding density in a corpus of DNA sequence data", Nucleic Acids Research, 21(12):2837-2844 [ abstract] [ Medline entry]

  7. promoter/TF
    W Fujibuchi, M Kanehisa (1993), "A method to extract functional motifs for transcriptional regulation in eukaryotic sequences", Bull. Inst. Chem. Res., Kyoto Univ. 71:317-326.

  8. MS Gelfand (1993), "Genetic language: metaphore or analogy?" [Review], Biosystems, 30(1-3),277-88.

  9. MS Gelfand, MA Roytberg (1993), "Prediction of the exon-intron structure by a dynamic programming approach", Biosystems, 30(1-3), 173-182 (Special issue on computer genetics)

  10. similarity
    W Gish, DJ States (1993), "Identification of protein coding regions by database similarity search", Nature Genetics, 3: 266-272.

  11. splicing
    M Guo, PCH Lo and SM Mount (1993), "Species-specific signals for the splicing of a short Drosophila intron in vitro", Molecular and Cellular Biology, 13:1104-1118.

  12. GB Hutchinson, MR Hayden (1993) , "SORFIND: A computer program that predicts exons in vertebrate genomic DNA", in Proceedings of the the Second International Conference on Bioinformatics, Supercomputing, and Complex Genome Analysis, eds. HA Lim, JW Fickett, CR Cantor, RJ Robbins (World Scientific, Singapore), pp.513-520. [supplement material: http://www.rabbithutch.com/ (SORFIND)]

  13. S Knudsen, R Guigo, T Smith (1993), "GeneID - A computer server for prediction of genes in DNA sequences", in Proceedings of the the Second International Conference on Bioinformatics, Supercomputing, and Complex Genome Analysis, eds. HA Lim, JW Fickett, CR Cantor, RJ Robbins (World Scientific, Singapore), pp.545-553.

  14. L Milanesi, NA Kolchanov, IB Rogozin, IV Ischenko, AE Kel, YL Orlov, MP Ponomarenko, P Vezzoni (1993), "GenViewer: a computing tool for protein-coding regions prediction in nucleotide sequences", in Proceedings of the the Second International Conference on Bioinformatics, Supercomputing, and Complex Genome Analysis, eds. HA Lim, JW Fickett, CR Cantor, RJ Robbins (World Scientific, Singapore), pp.573-587.

  15. promoter/TF
    R Nussinov (1993), "Strong sequence patterns in eukaryotic promoter regions: potential implications for DNA structure", International Journal of Biochemistry, 25(4):597-607.

  16. promoter/TF
    DS Prestridge, C Burks (1993), "The density of transcriptional elements in promoter and non-promoter sequences", Human Molecular Genetics, 2(9):1449-1453.
    [ Medline entry]

  17. promoter/TF
    DS Prestridge, G Stormo (1993), "SIGNAL SCAN 3.0: new database and program features", Computer Applications in Biosciences, 9(1):113-115. [ Medline entry]

  18. EE Snyder, GD Stormo (1993) , "Identification of coding regions in genomic DNA sequences: an application of dynamic programming and neural networks", Nucleic Acids Research, 21, 607-613. [ abstract]

  19. VV Solovyev, CB Lawrence (1993), "Identification of human gene functional regions based on oligonucleotide composition", Proceedings of the first international conference on Intelligent Systems for Molecular Biology (AAAI Press), pp.371-379. [ Medline entry]

  20. EC Uberbacher, JR Einstein, X Guan, RJ Mural (1993), "Gene recognition and assembly in the GRAIL system: progress and challenges", in Proceedings of the the Second International Conference on Bioinformatics, Supercomputing, and Complex Genome Analysis, eds. HA Lim, JW Fickett, CR Cantor, RJ Robbins (World Scientific, Singapore), pp.465-476.

  21. splicing
    MQ Zhang, TG Marr (1993), "A weight array method for splicing signal analysis", Computer Applications in Biosciences, 9(5):499-509.