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dc.contributor.authorYates, Tim
dc.contributor.authorOkoniewski, Michal J
dc.contributor.authorMiller, Crispin J
dc.date.accessioned2009-03-12T17:14:26Z
dc.date.available2009-03-12T17:14:26Z
dc.date.issued2008-01
dc.identifier.citationX:Map: annotation and visualization of genome structure for Affymetrix exon array analysis. 2008, 36 (Database issue):D780-6 Nucleic Acids Res.en
dc.identifier.issn1362-4962
dc.identifier.pmid17932061
dc.identifier.doi10.1093/nar/gkm779
dc.identifier.urihttp://hdl.handle.net/10541/55037
dc.description.abstractAffymetrix exon arrays aim to target every known and predicted exon in the human, mouse or rat genomes, and have reporters that extend beyond protein coding regions to other areas of the transcribed genome. This combination of increased coverage and precision is important because a substantial proportion of protein coding genes are predicted to be alternatively spliced, and because many non-coding genes are known also to be of biological significance. In order to fully exploit these arrays, it is necessary to associate each reporter on the array with the features of the genome it is targeting, and to relate these to gene and genome structure. X:Map is a genome annotation database that provides this information. Data can be browsed using a novel Google-maps based interface, and analysed and further visualized through an associated BioConductor package. The database can be found at http://xmap.picr.man.ac.uk.
dc.language.isoenen
dc.subjectAffymetrix Exon Arraysen
dc.subjectGenomeen
dc.subject.meshAlternative Splicing
dc.subject.meshAnimals
dc.subject.meshChromosome Mapping
dc.subject.meshComputer Graphics
dc.subject.meshDatabases, Genetic
dc.subject.meshExons
dc.subject.meshGene Expression Profiling
dc.subject.meshGenomics
dc.subject.meshHumans
dc.subject.meshInternet
dc.subject.meshMice
dc.subject.meshOligonucleotide Array Sequence Analysis
dc.subject.meshRats
dc.subject.meshSoftware
dc.subject.meshUser-Computer Interface
dc.titleX:Map: annotation and visualization of genome structure for Affymetrix exon array analysis.en
dc.typeArticleen
dc.contributor.departmentCancer Research UK, Bioinformatics Group, Paterson Institute for Cancer Research, The University of Manchester, Christie Hospital Site, Wilmslow Road, Withington, Manchester, M20 4BX, UK.en
dc.identifier.journalNucleic Acids Researchen
html.description.abstractAffymetrix exon arrays aim to target every known and predicted exon in the human, mouse or rat genomes, and have reporters that extend beyond protein coding regions to other areas of the transcribed genome. This combination of increased coverage and precision is important because a substantial proportion of protein coding genes are predicted to be alternatively spliced, and because many non-coding genes are known also to be of biological significance. In order to fully exploit these arrays, it is necessary to associate each reporter on the array with the features of the genome it is targeting, and to relate these to gene and genome structure. X:Map is a genome annotation database that provides this information. Data can be browsed using a novel Google-maps based interface, and analysed and further visualized through an associated BioConductor package. The database can be found at http://xmap.picr.man.ac.uk.


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