myKaryoView: a light-weight client for visualization of genomic data

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dc.contributor.authorJimenez, Rafael Cen_ZA
dc.contributor.authorSalazar, Gustavo Aen_ZA
dc.contributor.authorGel, Bernaten_ZA
dc.contributor.authorDopazo, Joaquinen_ZA
dc.contributor.authorMulder, Nicolaen_ZA
dc.contributor.authorCorpas, Manuelen_ZA
dc.date.accessioned2015-12-28T06:47:44Z
dc.date.available2015-12-28T06:47:44Z
dc.date.issued2011en_ZA
dc.description.abstractThe Distributed Annotation System (DAS) is a protocol for easy sharing and integration of biological annotations. In order to visualize feature annotations in a genomic context a client is required. Here we present myKaryoView, a simple light-weight DAS tool for visualization of genomic annotation. myKaryoView has been specifically configured to help analyse data derived from personal genomics, although it can also be used as a generic genome browser visualization. Several well-known data sources are provided to facilitate comparison of known genes and normal variation regions. The navigation experience is enhanced by simultaneous rendering of different levels of detail across chromosomes. A simple interface is provided to allow searches for any SNP, gene or chromosomal region. User-defined DAS data sources may also be added when querying the system. We demonstrate myKaryoView capabilities for adding user-defined sources with a set of genetic profiles of family-related individuals downloaded directly from 23andMe. myKaryoView is a web tool for visualization of genomic data specifically designed for direct-to-consumer genomic data that uses publicly available data distributed throughout the Internet. It does not require data to be held locally and it is capable of rendering any feature as long as it conforms to DAS specifications. Configuration and addition of sources to myKaryoView can be done through the interface. Here we show a proof of principle of myKaryoView's ability to display personal genomics data with 23andMe genome data sources. The tool is available at: http://mykaryoview.com .en_ZA
dc.identifier.apacitationJimenez, R. C., Salazar, G. A., Gel, B., Dopazo, J., Mulder, N., & Corpas, M. (2011). myKaryoView: a light-weight client for visualization of genomic data. <i>PLoS One</i>, http://hdl.handle.net/11427/16046en_ZA
dc.identifier.chicagocitationJimenez, Rafael C, Gustavo A Salazar, Bernat Gel, Joaquin Dopazo, Nicola Mulder, and Manuel Corpas "myKaryoView: a light-weight client for visualization of genomic data." <i>PLoS One</i> (2011) http://hdl.handle.net/11427/16046en_ZA
dc.identifier.citationJimenez, R. C., Salazar, G. A., Gel, B., Dopazo, J., Mulder, N., & Corpas, M. (2011). myKaryoView: a light-weight client for visualization of genomic data. PloS one, 6(10), e26345. doi:10.1371/journal.pone.0026345en_ZA
dc.identifier.ris TY - Journal Article AU - Jimenez, Rafael C AU - Salazar, Gustavo A AU - Gel, Bernat AU - Dopazo, Joaquin AU - Mulder, Nicola AU - Corpas, Manuel AB - The Distributed Annotation System (DAS) is a protocol for easy sharing and integration of biological annotations. In order to visualize feature annotations in a genomic context a client is required. Here we present myKaryoView, a simple light-weight DAS tool for visualization of genomic annotation. myKaryoView has been specifically configured to help analyse data derived from personal genomics, although it can also be used as a generic genome browser visualization. Several well-known data sources are provided to facilitate comparison of known genes and normal variation regions. The navigation experience is enhanced by simultaneous rendering of different levels of detail across chromosomes. A simple interface is provided to allow searches for any SNP, gene or chromosomal region. User-defined DAS data sources may also be added when querying the system. We demonstrate myKaryoView capabilities for adding user-defined sources with a set of genetic profiles of family-related individuals downloaded directly from 23andMe. myKaryoView is a web tool for visualization of genomic data specifically designed for direct-to-consumer genomic data that uses publicly available data distributed throughout the Internet. It does not require data to be held locally and it is capable of rendering any feature as long as it conforms to DAS specifications. Configuration and addition of sources to myKaryoView can be done through the interface. Here we show a proof of principle of myKaryoView's ability to display personal genomics data with 23andMe genome data sources. The tool is available at: http://mykaryoview.com . DA - 2011 DB - OpenUCT DO - 10.1371/journal.pone.0026345 DP - University of Cape Town J1 - PLoS One LK - https://open.uct.ac.za PB - University of Cape Town PY - 2011 T1 - myKaryoView: a light-weight client for visualization of genomic data TI - myKaryoView: a light-weight client for visualization of genomic data UR - http://hdl.handle.net/11427/16046 ER - en_ZA
dc.identifier.urihttp://hdl.handle.net/11427/16046
dc.identifier.urihttp://dx.doi.org/10.1371/journal.pone.0026345
dc.identifier.vancouvercitationJimenez RC, Salazar GA, Gel B, Dopazo J, Mulder N, Corpas M. myKaryoView: a light-weight client for visualization of genomic data. PLoS One. 2011; http://hdl.handle.net/11427/16046.en_ZA
dc.language.isoengen_ZA
dc.publisherPublic Library of Scienceen_ZA
dc.publisher.departmentInstitute of Infectious Disease and Molecular Medicineen_ZA
dc.publisher.facultyFaculty of Health Sciencesen_ZA
dc.publisher.institutionUniversity of Cape Town
dc.rightsThis is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.en_ZA
dc.rights.holder© 2011 Jimenez et alen_ZA
dc.rights.urihttp://creativecommons.org/licenses/by/4.0en_ZA
dc.sourcePLoS Oneen_ZA
dc.source.urihttp://journals.plos.org/plosoneen_ZA
dc.subject.otherGenome analysisen_ZA
dc.subject.otherData visualizationen_ZA
dc.subject.otherGenomic databasesen_ZA
dc.subject.otherGenome annotationen_ZA
dc.subject.otherChromosomesen_ZA
dc.subject.otherGenetic causes of canceren_ZA
dc.subject.otherInterneten_ZA
dc.subject.otherMutation databasesen_ZA
dc.titlemyKaryoView: a light-weight client for visualization of genomic dataen_ZA
dc.typeJournal Articleen_ZA
uct.type.filetypeText
uct.type.filetypeImage
uct.type.publicationResearchen_ZA
uct.type.resourceArticleen_ZA
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