GenExp: an interactive web-based genomic DAS client with client-side data rendering.

<h4>Background</h4>The Distributed Annotation System (DAS) offers a standard protocol for sharing and integrating annotations on biological sequences. There are more than 1000 DAS sources available and the number is steadily increasing. Clients are an essential part of the DAS system and...

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Autores principales:	Bernat Gel Moreno, Xavier Messeguer Peypoch
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2011
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/14b42ec227a04cb2b0579454fb090480
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spelling	oai:doaj.org-article:14b42ec227a04cb2b0579454fb0904802021-11-18T06:50:46ZGenExp: an interactive web-based genomic DAS client with client-side data rendering.1932-620310.1371/journal.pone.0021270https://doaj.org/article/14b42ec227a04cb2b0579454fb0904802011-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/21750706/?tool=EBIhttps://doaj.org/toc/1932-6203<h4>Background</h4>The Distributed Annotation System (DAS) offers a standard protocol for sharing and integrating annotations on biological sequences. There are more than 1000 DAS sources available and the number is steadily increasing. Clients are an essential part of the DAS system and integrate data from several independent sources in order to create a useful representation to the user. While web-based DAS clients exist, most of them do not have direct interaction capabilities such as dragging and zooming with the mouse.<h4>Results</h4>Here we present GenExp, a web based and fully interactive visual DAS client. GenExp is a genome oriented DAS client capable of creating informative representations of genomic data zooming out from base level to complete chromosomes. It proposes a novel approach to genomic data rendering and uses the latest HTML5 web technologies to create the data representation inside the client browser. Thanks to client-side rendering most position changes do not need a network request to the server and so responses to zooming and panning are almost immediate. In GenExp it is possible to explore the genome intuitively moving it with the mouse just like geographical map applications. Additionally, in GenExp it is possible to have more than one data viewer at the same time and to save the current state of the application to revisit it later on.<h4>Conclusions</h4>GenExp is a new interactive web-based client for DAS and addresses some of the short-comings of the existing clients. It uses client-side data rendering techniques resulting in easier genome browsing and exploration. GenExp is open source under the GPL license and it is freely available at http://gralggen.lsi.upc.edu/recerca/genexp.Bernat Gel MorenoXavier Messeguer PeypochPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 6, Iss 7, p e21270 (2011)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Bernat Gel Moreno Xavier Messeguer Peypoch GenExp: an interactive web-based genomic DAS client with client-side data rendering.
description	<h4>Background</h4>The Distributed Annotation System (DAS) offers a standard protocol for sharing and integrating annotations on biological sequences. There are more than 1000 DAS sources available and the number is steadily increasing. Clients are an essential part of the DAS system and integrate data from several independent sources in order to create a useful representation to the user. While web-based DAS clients exist, most of them do not have direct interaction capabilities such as dragging and zooming with the mouse.<h4>Results</h4>Here we present GenExp, a web based and fully interactive visual DAS client. GenExp is a genome oriented DAS client capable of creating informative representations of genomic data zooming out from base level to complete chromosomes. It proposes a novel approach to genomic data rendering and uses the latest HTML5 web technologies to create the data representation inside the client browser. Thanks to client-side rendering most position changes do not need a network request to the server and so responses to zooming and panning are almost immediate. In GenExp it is possible to explore the genome intuitively moving it with the mouse just like geographical map applications. Additionally, in GenExp it is possible to have more than one data viewer at the same time and to save the current state of the application to revisit it later on.<h4>Conclusions</h4>GenExp is a new interactive web-based client for DAS and addresses some of the short-comings of the existing clients. It uses client-side data rendering techniques resulting in easier genome browsing and exploration. GenExp is open source under the GPL license and it is freely available at http://gralggen.lsi.upc.edu/recerca/genexp.
format	article
author	Bernat Gel Moreno Xavier Messeguer Peypoch
author_facet	Bernat Gel Moreno Xavier Messeguer Peypoch
author_sort	Bernat Gel Moreno
title	GenExp: an interactive web-based genomic DAS client with client-side data rendering.
title_short	GenExp: an interactive web-based genomic DAS client with client-side data rendering.
title_full	GenExp: an interactive web-based genomic DAS client with client-side data rendering.
title_fullStr	GenExp: an interactive web-based genomic DAS client with client-side data rendering.
title_full_unstemmed	GenExp: an interactive web-based genomic DAS client with client-side data rendering.
title_sort	genexp: an interactive web-based genomic das client with client-side data rendering.
publisher	Public Library of Science (PLoS)
publishDate	2011
url	https://doaj.org/article/14b42ec227a04cb2b0579454fb090480
work_keys_str_mv	AT bernatgelmoreno genexpaninteractivewebbasedgenomicdasclientwithclientsidedatarendering AT xaviermesseguerpeypoch genexpaninteractivewebbasedgenomicdasclientwithclientsidedatarendering
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GenExp: an interactive web-based genomic DAS client with client-side data rendering.

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