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MAGNOLIA: multiple alignment of protein-coding and structural RNA sequences.
Fontaine A, de Monte A, Touzet H. Fontaine A, et al. Among authors: touzet h. Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W14-8. doi: 10.1093/nar/gkn321. Epub 2008 May 30. Nucleic Acids Res. 2008. PMID: 18515348 Free PMC article.
Finding the common structure shared by two homologous RNAs.
Perriquet O, Touzet H, Dauchet M. Perriquet O, et al. Among authors: touzet h. Bioinformatics. 2003 Jan;19(1):108-16. doi: 10.1093/bioinformatics/19.1.108. Bioinformatics. 2003. PMID: 12499300
CARNAC: folding families of related RNAs.
Touzet H, Perriquet O. Touzet H, et al. Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W142-5. doi: 10.1093/nar/gkh415. Nucleic Acids Res. 2004. PMID: 15215367 Free PMC article.
Predicting transcription factor binding sites using local over-representation and comparative genomics.
Defrance M, Touzet H. Defrance M, et al. Among authors: touzet h. BMC Bioinformatics. 2006 Aug 31;7:396. doi: 10.1186/1471-2105-7-396. BMC Bioinformatics. 2006. PMID: 16945132 Free PMC article.
Comparative analysis of RNA genes: the caRNAc software.
Touzet H. Touzet H. Methods Mol Biol. 2007;395:465-74. doi: 10.1007/978-1-59745-514-5_29. Methods Mol Biol. 2007. PMID: 17993692
Efficient and accurate P-value computation for Position Weight Matrices.
Touzet H, Varré JS. Touzet H, et al. Algorithms Mol Biol. 2007 Dec 11;2:15. doi: 10.1186/1748-7188-2-15. Algorithms Mol Biol. 2007. PMID: 18072973 Free PMC article.
Computational identification of protein-coding sequences by comparative analysis.
Fontaine A, Touzet H. Fontaine A, et al. Among authors: touzet h. Int J Data Min Bioinform. 2009;3(2):160-76. doi: 10.1504/ijdmb.2009.024849. Int J Data Min Bioinform. 2009. PMID: 19517987
Alignments of RNA structures.
Blin G, Denise A, Dulucq S, Herrbach C, Touzet H. Blin G, et al. Among authors: touzet h. IEEE/ACM Trans Comput Biol Bioinform. 2010 Apr-Jun;7(2):309-22. doi: 10.1109/TCBB.2008.28. IEEE/ACM Trans Comput Biol Bioinform. 2010. PMID: 20431150
TFM-Explorer: mining cis-regulatory regions in genomes.
Tonon L, Touzet H, Varré JS. Tonon L, et al. Among authors: touzet h. Nucleic Acids Res. 2010 Jul;38(Web Server issue):W286-92. doi: 10.1093/nar/gkq473. Epub 2010 Jun 3. Nucleic Acids Res. 2010. PMID: 20522509 Free PMC article.
RNA locally optimal secondary structures.
Saffarian A, Giraud M, de Monte A, Touzet H. Saffarian A, et al. Among authors: touzet h. J Comput Biol. 2012 Oct;19(10):1120-33. doi: 10.1089/cmb.2010.0178. J Comput Biol. 2012. PMID: 23057822
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