Pesole G - Search Results

1

Assessing computational tools for the discovery of transcription factor binding sites.

Tompa M, Li N, Bailey TL, Church GM, De Moor B, Eskin E, Favorov AV, Frith MC, Fu Y, Kent WJ, Makeev VJ, Mironov AA, Noble WS, Pavesi G, Pesole G, Régnier M, Simonis N, Sinha S, Thijs G, van Helden J, Vandenbogaert M, Weng Z, Workman C, Ye C, Zhu Z. Tompa M, et al. Among authors: pesole g. Nat Biotechnol. 2005 Jan;23(1):137-44. doi: 10.1038/nbt1053. Nat Biotechnol. 2005. PMID: 15637633 Free article.

2

An algorithm for finding signals of unknown length in DNA sequences.

Pavesi G, Mauri G, Pesole G. Pavesi G, et al. Among authors: pesole g. Bioinformatics. 2001;17 Suppl 1:S207-14. doi: 10.1093/bioinformatics/17.suppl_1.s207. Bioinformatics. 2001. PMID: 11473011

3

RNAProfile: an algorithm for finding conserved secondary structure motifs in unaligned RNA sequences.

Pavesi G, Mauri G, Stefani M, Pesole G. Pavesi G, et al. Among authors: pesole g. Nucleic Acids Res. 2004 Jun 15;32(10):3258-69. doi: 10.1093/nar/gkh650. Print 2004. Nucleic Acids Res. 2004. PMID: 15199174 Free PMC article.

4

Weeder Web: discovery of transcription factor binding sites in a set of sequences from co-regulated genes.

Pavesi G, Mereghetti P, Mauri G, Pesole G. Pavesi G, et al. Among authors: pesole g. Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W199-203. doi: 10.1093/nar/gkh465. Nucleic Acids Res. 2004. PMID: 15215380 Free PMC article.

5

In silico representation and discovery of transcription factor binding sites.

Pavesi G, Mauri G, Pesole G. Pavesi G, et al. Among authors: pesole g. Brief Bioinform. 2004 Sep;5(3):217-36. doi: 10.1093/bib/5.3.217. Brief Bioinform. 2004. PMID: 15383209 Review.

6

MoD Tools: regulatory motif discovery in nucleotide sequences from co-regulated or homologous genes.

Pavesi G, Mereghetti P, Zambelli F, Stefani M, Mauri G, Pesole G. Pavesi G, et al. Among authors: pesole g. Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W566-70. doi: 10.1093/nar/gkl285. Nucleic Acids Res. 2006. PMID: 16845071 Free PMC article.

7

Discrimination of non-protein-coding transcripts from protein-coding mRNA.

Frith MC, Bailey TL, Kasukawa T, Mignone F, Kummerfeld SK, Madera M, Sunkara S, Furuno M, Bult CJ, Quackenbush J, Kai C, Kawai J, Carninci P, Hayashizaki Y, Pesole G, Mattick JS. Frith MC, et al. Among authors: pesole g. RNA Biol. 2006 Jan-Mar;3(1):40-8. doi: 10.4161/rna.3.1.2789. Epub 2006 Apr 3. RNA Biol. 2006. PMID: 17114936 Free article.

8

WeederH: an algorithm for finding conserved regulatory motifs and regions in homologous sequences.

Pavesi G, Zambelli F, Pesole G. Pavesi G, et al. Among authors: pesole g. BMC Bioinformatics. 2007 Feb 7;8:46. doi: 10.1186/1471-2105-8-46. BMC Bioinformatics. 2007. PMID: 17286865 Free PMC article.

9

Finding conserved gene order across multiple genomes.

Pavesi G, Pesole G. Pavesi G, et al. Among authors: pesole g. Methods Mol Biol. 2007;396:111-9. doi: 10.1007/978-1-59745-515-2_8. Methods Mol Biol. 2007. PMID: 18025689

10

Exalign: a new method for comparative analysis of exon-intron gene structures.

Pavesi G, Zambelli F, Caggese C, Pesole G. Pavesi G, et al. Among authors: pesole g. Nucleic Acids Res. 2008 May;36(8):e47. doi: 10.1093/nar/gkn153. Epub 2008 Apr 8. Nucleic Acids Res. 2008. PMID: 18397951 Free PMC article.

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