GeneMark.hmm: new solutions for gene finding.

  title={GeneMark.hmm: new solutions for gene finding.},
  author={Alexander V Lukashin and Mark Yu Borodovsky},
  journal={Nucleic acids research},
  volume={26 4},
The number of completely sequenced bacterial genomes has been growing fast. There are computer methods available for finding genes but yet there is a need for more accurate algorithms. The GeneMark. hmm algorithm presented here was designed to improve the gene prediction quality in terms of finding exact gene boundaries. The idea was to embed the GeneMark models into naturally derived hidden Markov model framework with gene boundaries modeled as transitions between hidden states. We also used… CONTINUE READING


Publications citing this paper.
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Publications referenced by this paper.
Showing 1-10 of 16 references

Pacific Symp. Biocomput

  • W S Hayes, M Borodovsky
  • Pacific Symp. Biocomput
  • 1998

Genome Res. Electrophoresis

  • W Hayes, M Borodovsky, A J Link, K Robison, G M Church
  • Genome Res. Electrophoresis
  • 1997

J. Bacteriol

  • D R Smith, L A Doucette-Stamm, +7 authors K Gilbert
  • J. Bacteriol
  • 1997

J. Comp. Biol

  • J Henderson, S Salzberg, K H Fasman
  • J. Comp. Biol
  • 1997


  • J.-F Tomb, O White, +7 authors B A Dougherty
  • Nature
  • 1997


  • S Tabata
  • 1996

Nucleic Acids Res

  • R Himmelreich, H Hilbert, H Plagens, E Pirkl, B Li, C Herrmann
  • Nucleic Acids Res
  • 1996

Proceedings Fourth International Conference on Intelligent Systems for Molecular Biology (ISMB-96

  • D Kulp, D Haussler, +6 authors R F Smith
  • Proceedings Fourth International Conference on…
  • 1996


  • R D Fleischmann, M D Adams, +7 authors J M Merrick
  • Science
  • 1995

J. Mol. Biol

  • A Krogh, M Brown, I S Mian, K Sjolander, D Haussler
  • J. Mol. Biol
  • 1994

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