Comparison of genomic DNA sequences: solved and unsolved problems

Bioinformatics. 2001 May;17(5):391-7. doi: 10.1093/bioinformatics/17.5.391.


Motivation: The DNA sequences of entire genomes are being determined at a rapid rate. Whereas initial genome sequencing efforts were for organisms chosen to be widely spaced in the tree of life, there is a growing emphasis on projects to sequence a species that is sufficiently similar to an already-sequenced species to allow direct comparison of those two DNA sequences. This and other changes in genome sequencing strategies have created a strong need for new methods to compare genomic sequences.

Results: We sketch the current state of software for comparing genomic DNA sequences and outline research directions that we believe are likely to result in important advances in practice.

Publication types

  • Comparative Study
  • Research Support, U.S. Gov't, P.H.S.
  • Review

MeSH terms

  • Algorithms
  • Computational Biology
  • Sequence Alignment / statistics & numerical data*
  • Sequence Alignment / trends
  • Software