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myKaryoView: A Light-Weight Client for Visualization of Genomic Data

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....

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Detalles Bibliográficos
Autores principales: Jimenez, Rafael C., Salazar, Gustavo A., Gel, Bernat, Dopazo, Joaquin, Mulder, Nicola, Corpas, Manuel
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2011
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3202530/
https://www.ncbi.nlm.nih.gov/pubmed/22046276
http://dx.doi.org/10.1371/journal.pone.0026345
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author Jimenez, Rafael C.
Salazar, Gustavo A.
Gel, Bernat
Dopazo, Joaquin
Mulder, Nicola
Corpas, Manuel
author_facet Jimenez, Rafael C.
Salazar, Gustavo A.
Gel, Bernat
Dopazo, Joaquin
Mulder, Nicola
Corpas, Manuel
author_sort Jimenez, Rafael C.
collection PubMed
description 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.
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spelling pubmed-32025302011-11-01 myKaryoView: A Light-Weight Client for Visualization of Genomic Data Jimenez, Rafael C. Salazar, Gustavo A. Gel, Bernat Dopazo, Joaquin Mulder, Nicola Corpas, Manuel PLoS One Research Article 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. Public Library of Science 2011-10-26 /pmc/articles/PMC3202530/ /pubmed/22046276 http://dx.doi.org/10.1371/journal.pone.0026345 Text en Jimenez et al. http://creativecommons.org/licenses/by/4.0/ This 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 properly credited.
spellingShingle Research Article
Jimenez, Rafael C.
Salazar, Gustavo A.
Gel, Bernat
Dopazo, Joaquin
Mulder, Nicola
Corpas, Manuel
myKaryoView: A Light-Weight Client for Visualization of Genomic Data
title myKaryoView: A Light-Weight Client for Visualization of Genomic Data
title_full myKaryoView: A Light-Weight Client for Visualization of Genomic Data
title_fullStr myKaryoView: A Light-Weight Client for Visualization of Genomic Data
title_full_unstemmed myKaryoView: A Light-Weight Client for Visualization of Genomic Data
title_short myKaryoView: A Light-Weight Client for Visualization of Genomic Data
title_sort mykaryoview: a light-weight client for visualization of genomic data
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3202530/
https://www.ncbi.nlm.nih.gov/pubmed/22046276
http://dx.doi.org/10.1371/journal.pone.0026345
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