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Tracking repeats using significance and transitivity.
Szklarczyk R, Heringa J. Szklarczyk R, et al. Among authors: heringa j. Bioinformatics. 2004 Aug 4;20 Suppl 1:i311-7. doi: 10.1093/bioinformatics/bth911. Bioinformatics. 2004. PMID: 15262814
AuberGene--a sensitive genome alignment tool.
Szklarczyk R, Heringa J. Szklarczyk R, et al. Among authors: heringa j. Bioinformatics. 2006 Jun 15;22(12):1431-6. doi: 10.1093/bioinformatics/btl112. Epub 2006 Apr 10. Bioinformatics. 2006. PMID: 16606686 Free article.
Sequence harmony: detecting functional specificity from alignments.
Feenstra KA, Pirovano W, Krab K, Heringa J. Feenstra KA, et al. Among authors: heringa j. Nucleic Acids Res. 2007 Jul;35(Web Server issue):W495-8. doi: 10.1093/nar/gkm406. Epub 2007 Jun 21. Nucleic Acids Res. 2007. PMID: 17584793 Free PMC article.
An overview of multiple sequence alignment.
Simossis V, Kleinjung J, Heringa J. Simossis V, et al. Among authors: heringa j. Curr Protoc Bioinformatics. 2003 Nov;Chapter 3:3.7.1-3.7.26. doi: 10.1002/0471250953.bi0307s03. Curr Protoc Bioinformatics. 2003. PMID: 18428699 Review.
Multiple sequence alignment.
Pirovano W, Heringa J. Pirovano W, et al. Among authors: heringa j. Methods Mol Biol. 2008;452:143-61. doi: 10.1007/978-1-60327-159-2_7. Methods Mol Biol. 2008. PMID: 18566763 Review.
138 results