Kinome Render: a stand-alone and web-accessible tool to annotate the human protein kinome tree
Human protein kinases play fundamental roles mediating the majority of signal transduction pathways in eukaryotic cells as well as a multitude of other processes involved in metabolism, cell-cycle regulation, cellular shape, motility, differentiation and apoptosis. The human protein kinome contains...
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doaj-a1e66c0ff6454c7dbd0cdd089035490f2020-11-24T23:53:38ZengPeerJ Inc.PeerJ2167-83592013-08-011e12610.7717/peerj.126126Kinome Render: a stand-alone and web-accessible tool to annotate the human protein kinome treeMatthieu Chartier0Thierry Chénard1Jonathan Barker2Rafael Najmanovich3Department of Biochemistry, Faculty of Medicine and Health Sciences, Université de Sherbrooke, Québec, CanadaDepartment of Biochemistry, Faculty of Medicine and Health Sciences, Université de Sherbrooke, Québec, CanadaEuropean Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UKDepartment of Biochemistry, Faculty of Medicine and Health Sciences, Université de Sherbrooke, Québec, CanadaHuman protein kinases play fundamental roles mediating the majority of signal transduction pathways in eukaryotic cells as well as a multitude of other processes involved in metabolism, cell-cycle regulation, cellular shape, motility, differentiation and apoptosis. The human protein kinome contains 518 members. Most studies that focus on the human kinome require, at some point, the visualization of large amounts of data. The visualization of such data within the framework of a phylogenetic tree may help identify key relationships between different protein kinases in view of their evolutionary distance and the information used to annotate the kinome tree. For example, studies that focus on the promiscuity of kinase inhibitors can benefit from the annotations to depict binding affinities across kinase groups. Images involving the mapping of information into the kinome tree are common. However, producing such figures manually can be a long arduous process prone to errors. To circumvent this issue, we have developed a web-based tool called Kinome Render (KR) that produces customized annotations on the human kinome tree. KR allows the creation and automatic overlay of customizable text or shape-based annotations of different sizes and colors on the human kinome tree. The web interface can be accessed at: http://bcb.med.usherbrooke.ca/kinomerender. A stand-alone version is also available and can be run locally.https://peerj.com/articles/126.pdfAnnotationHuman kinome treeProtein kinasesData visualisation |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Matthieu Chartier Thierry Chénard Jonathan Barker Rafael Najmanovich |
spellingShingle |
Matthieu Chartier Thierry Chénard Jonathan Barker Rafael Najmanovich Kinome Render: a stand-alone and web-accessible tool to annotate the human protein kinome tree PeerJ Annotation Human kinome tree Protein kinases Data visualisation |
author_facet |
Matthieu Chartier Thierry Chénard Jonathan Barker Rafael Najmanovich |
author_sort |
Matthieu Chartier |
title |
Kinome Render: a stand-alone and web-accessible tool to annotate the human protein kinome tree |
title_short |
Kinome Render: a stand-alone and web-accessible tool to annotate the human protein kinome tree |
title_full |
Kinome Render: a stand-alone and web-accessible tool to annotate the human protein kinome tree |
title_fullStr |
Kinome Render: a stand-alone and web-accessible tool to annotate the human protein kinome tree |
title_full_unstemmed |
Kinome Render: a stand-alone and web-accessible tool to annotate the human protein kinome tree |
title_sort |
kinome render: a stand-alone and web-accessible tool to annotate the human protein kinome tree |
publisher |
PeerJ Inc. |
series |
PeerJ |
issn |
2167-8359 |
publishDate |
2013-08-01 |
description |
Human protein kinases play fundamental roles mediating the majority of signal transduction pathways in eukaryotic cells as well as a multitude of other processes involved in metabolism, cell-cycle regulation, cellular shape, motility, differentiation and apoptosis. The human protein kinome contains 518 members. Most studies that focus on the human kinome require, at some point, the visualization of large amounts of data. The visualization of such data within the framework of a phylogenetic tree may help identify key relationships between different protein kinases in view of their evolutionary distance and the information used to annotate the kinome tree. For example, studies that focus on the promiscuity of kinase inhibitors can benefit from the annotations to depict binding affinities across kinase groups. Images involving the mapping of information into the kinome tree are common. However, producing such figures manually can be a long arduous process prone to errors. To circumvent this issue, we have developed a web-based tool called Kinome Render (KR) that produces customized annotations on the human kinome tree. KR allows the creation and automatic overlay of customizable text or shape-based annotations of different sizes and colors on the human kinome tree. The web interface can be accessed at: http://bcb.med.usherbrooke.ca/kinomerender. A stand-alone version is also available and can be run locally. |
topic |
Annotation Human kinome tree Protein kinases Data visualisation |
url |
https://peerj.com/articles/126.pdf |
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