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Genome3D: exploiting structure to help users understand their sequences.
Lewis TE, Sillitoe I, Andreeva A, Blundell TL, Buchan DW, Chothia C, Cozzetto D, Dana JM, Filippis I, Gough J, Jones DT, Kelley LA, Kleywegt GJ, Minneci F, Mistry J, Murzin AG, Ochoa-Montaño B, Oates ME, Punta M, Rackham OJ, Stahlhacke J, Sternberg MJ, Velankar S, Orengo C. Lewis TE, et al. Among authors: orengo c. Nucleic Acids Res. 2015 Jan;43(Database issue):D382-6. doi: 10.1093/nar/gku973. Epub 2014 Oct 27. Nucleic Acids Res. 2015. PMID: 25348407 Free PMC article.
A structural perspective on genome evolution.
Lee D, Grant A, Buchan D, Orengo C. Lee D, et al. Among authors: orengo c. Curr Opin Struct Biol. 2003 Jun;13(3):359-69. doi: 10.1016/s0959-440x(03)00079-4. Curr Opin Struct Biol. 2003. PMID: 12831888 Review.
Recognizing the fold of a protein structure.
Harrison A, Pearl F, Sillitoe I, Slidel T, Mott R, Thornton J, Orengo C. Harrison A, et al. Among authors: orengo c. Bioinformatics. 2003 Sep 22;19(14):1748-59. doi: 10.1093/bioinformatics/btg240. Bioinformatics. 2003. PMID: 14512345
The CATH Domain Structure Database and related resources Gene3D and DHS provide comprehensive domain family information for genome analysis.
Pearl F, Todd A, Sillitoe I, Dibley M, Redfern O, Lewis T, Bennett C, Marsden R, Grant A, Lee D, Akpor A, Maibaum M, Harrison A, Dallman T, Reeves G, Diboun I, Addou S, Lise S, Johnston C, Sillero A, Thornton J, Orengo C. Pearl F, et al. Among authors: orengo c. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D247-51. doi: 10.1093/nar/gki024. Nucleic Acids Res. 2005. PMID: 15608188 Free PMC article.
Assessing strategies for improved superfamily recognition.
Sillitoe I, Dibley M, Bray J, Addou S, Orengo C. Sillitoe I, et al. Among authors: orengo c. Protein Sci. 2005 Jul;14(7):1800-10. doi: 10.1110/ps.041056105. Epub 2005 Jun 3. Protein Sci. 2005. PMID: 15937274 Free PMC article.
New developments in the InterPro database.
Mulder NJ, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bork P, Buillard V, Cerutti L, Copley R, Courcelle E, Das U, Daugherty L, Dibley M, Finn R, Fleischmann W, Gough J, Haft D, Hulo N, Hunter S, Kahn D, Kanapin A, Kejariwal A, Labarga A, Langendijk-Genevaux PS, Lonsdale D, Lopez R, Letunic I, Madera M, Maslen J, McAnulla C, McDowall J, Mistry J, Mitchell A, Nikolskaya AN, Orchard S, Orengo C, Petryszak R, Selengut JD, Sigrist CJ, Thomas PD, Valentin F, Wilson D, Wu CH, Yeats C. Mulder NJ, et al. Among authors: orengo c. Nucleic Acids Res. 2007 Jan;35(Database issue):D224-8. doi: 10.1093/nar/gkl841. Nucleic Acids Res. 2007. PMID: 17202162 Free PMC article.
Gene3D: comprehensive structural and functional annotation of genomes.
Yeats C, Lees J, Reid A, Kellam P, Martin N, Liu X, Orengo C. Yeats C, et al. Among authors: orengo c. Nucleic Acids Res. 2008 Jan;36(Database issue):D414-8. doi: 10.1093/nar/gkm1019. Epub 2007 Nov 21. Nucleic Acids Res. 2008. PMID: 18032434 Free PMC article.
InterPro: the integrative protein signature database.
Hunter S, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bork P, Das U, Daugherty L, Duquenne L, Finn RD, Gough J, Haft D, Hulo N, Kahn D, Kelly E, Laugraud A, Letunic I, Lonsdale D, Lopez R, Madera M, Maslen J, McAnulla C, McDowall J, Mistry J, Mitchell A, Mulder N, Natale D, Orengo C, Quinn AF, Selengut JD, Sigrist CJ, Thimma M, Thomas PD, Valentin F, Wilson D, Wu CH, Yeats C. Hunter S, et al. Among authors: orengo c. Nucleic Acids Res. 2009 Jan;37(Database issue):D211-5. doi: 10.1093/nar/gkn785. Epub 2008 Oct 21. Nucleic Acids Res. 2009. PMID: 18940856 Free PMC article.
300 results