| http://purl.uniprot.org/citations/18981268 | http://www.w3.org/1999/02/22-rdf-syntax-ns#type | http://purl.uniprot.org/core/Journal_Citation |
| http://purl.uniprot.org/citations/18981268 | http://www.w3.org/1999/02/22-rdf-syntax-ns#type | http://purl.uniprot.org/core/Journal_Citation |
| http://purl.uniprot.org/citations/18981268 | http://www.w3.org/2000/01/rdf-schema#comment | "To learn how well ungapped sequence comparisons of multiple species can predict cis-regulatory elements in Caenorhabditis elegans, we made such predictions across the large, complex ceh-13/lin-39 locus and tested them transgenically. We also examined how prediction quality varied with different genomes and parameters in our comparisons. Specifically, we sequenced approximately 0.5% of the C. brenneri and C. sp. 3 PS1010 genomes, and compared five Caenorhabditis genomes (C. elegans, C. briggsae, C. brenneri, C. remanei, and C. sp. 3 PS1010) to find regulatory elements in 22.8 kb of noncoding sequence from the ceh-13/lin-39 Hox subcluster. We developed the MUSSA program to find ungapped DNA sequences with N-way transitive conservation, applied it to the ceh-13/lin-39 locus, and transgenically assayed 21 regions with both high and low degrees of conservation. This identified 10 functional regulatory elements whose activities matched known ceh-13/lin-39 expression, with 100% specificity and a 77% recovery rate. One element was so well conserved that a similar mouse Hox cluster sequence recapitulated the native nematode expression pattern when tested in worms. Our findings suggest that ungapped sequence comparisons can predict regulatory elements genome-wide."xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.org/dc/terms/identifier | "doi:10.1101/gr.085472.108"xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.org/dc/terms/identifier | "doi:10.1101/gr.085472.108"xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/author | "Shizuya H."xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/author | "Shizuya H."xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/author | "Schwarz E.M."xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/author | "Schwarz E.M."xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/author | "Sternberg P.W."xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/author | "Sternberg P.W."xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/author | "Wold B.J."xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/author | "Wold B.J."xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/author | "DeModena J.A."xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/author | "DeModena J.A."xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/author | "De Buysscher T."xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/author | "De Buysscher T."xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/author | "Kuntz S.G."xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/author | "Kuntz S.G."xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/author | "Trout D."xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/author | "Trout D."xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/date | "2008"xsd:gYear |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/date | "2008"xsd:gYear |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/name | "Genome Res."xsd:string |
| http://purl.uniprot.org/citations/18981268 | http://purl.uniprot.org/core/name | "Genome Res"xsd:string |