Display Settings:


Send to:

Choose Destination
See comment in PubMed Commons below
Bioinformatics. 2009 Oct 1;25(19):2455-65. doi: 10.1093/bioinformatics/btp452. Epub 2009 Jul 30.

Upcoming challenges for multiple sequence alignment methods in the high-throughput era.

Author information

  • 1Centre For Genomic Regulation, Pompeus Fabre University, Carrer del Doctor Aiguader 88, 08003 Barcelona, Spain.


This review focuses on recent trends in multiple sequence alignment tools. It describes the latest algorithmic improvements including the extension of consistency-based methods to the problem of template-based multiple sequence alignments. Some results are presented suggesting that template-based methods are significantly more accurate than simpler alternative methods. The validation of existing methods is also discussed at length with the detailed description of recent results and some suggestions for future validation strategies. The last part of the review addresses future challenges for multiple sequence alignment methods in the genomic era, most notably the need to cope with very large sequences, the need to integrate large amounts of experimental data, the need to accurately align non-coding and non-transcribed sequences and finally, the need to integrate many alternative methods and approaches.

[PubMed - indexed for MEDLINE]
Free PMC Article

Images from this publication.See all images (3)Free text

Fig. 1.
Fig. 2.
Fig. 3.
PubMed Commons home

PubMed Commons

How to join PubMed Commons

    Supplemental Content

    Icon for HighWire Icon for PubMed Central
    Loading ...
    Write to the Help Desk