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KinMap: a web-based tool for interactive navigation through human kinome data
BACKGROUND: Annotations of the phylogenetic tree of the human kinome is an intuitive way to visualize compound profiling data, structural features of kinases or functional relationships within this important class of proteins. The increasing volume and complexity of kinase-related data underlines th...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2017
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5217312/ https://www.ncbi.nlm.nih.gov/pubmed/28056780 http://dx.doi.org/10.1186/s12859-016-1433-7 |
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author | Eid, Sameh Turk, Samo Volkamer, Andrea Rippmann, Friedrich Fulle, Simone |
author_facet | Eid, Sameh Turk, Samo Volkamer, Andrea Rippmann, Friedrich Fulle, Simone |
author_sort | Eid, Sameh |
collection | PubMed |
description | BACKGROUND: Annotations of the phylogenetic tree of the human kinome is an intuitive way to visualize compound profiling data, structural features of kinases or functional relationships within this important class of proteins. The increasing volume and complexity of kinase-related data underlines the need for a tool that enables complex queries pertaining to kinase disease involvement and potential therapeutic uses of kinase inhibitors. RESULTS: Here, we present KinMap, a user-friendly online tool that facilitates the interactive navigation through kinase knowledge by linking biochemical, structural, and disease association data to the human kinome tree. To this end, preprocessed data from freely-available sources, such as ChEMBL, the Protein Data Bank, and the Center for Therapeutic Target Validation platform are integrated into KinMap and can easily be complemented by proprietary data. The value of KinMap will be exemplarily demonstrated for uncovering new therapeutic indications of known kinase inhibitors and for prioritizing kinases for drug development efforts. CONCLUSION: KinMap represents a new generation of kinome tree viewers which facilitates interactive exploration of the human kinome. KinMap enables generation of high-quality annotated images of the human kinome tree as well as exchange of kinome-related data in scientific communications. Furthermore, KinMap supports multiple input and output formats and recognizes alternative kinase names and links them to a unified naming scheme, which makes it a useful tool across different disciplines and applications. A web-service of KinMap is freely available at http://www.kinhub.org/kinmap/. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12859-016-1433-7) contains supplementary material, which is available to authorized users. |
format | Online Article Text |
id | pubmed-5217312 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-52173122017-01-09 KinMap: a web-based tool for interactive navigation through human kinome data Eid, Sameh Turk, Samo Volkamer, Andrea Rippmann, Friedrich Fulle, Simone BMC Bioinformatics Software BACKGROUND: Annotations of the phylogenetic tree of the human kinome is an intuitive way to visualize compound profiling data, structural features of kinases or functional relationships within this important class of proteins. The increasing volume and complexity of kinase-related data underlines the need for a tool that enables complex queries pertaining to kinase disease involvement and potential therapeutic uses of kinase inhibitors. RESULTS: Here, we present KinMap, a user-friendly online tool that facilitates the interactive navigation through kinase knowledge by linking biochemical, structural, and disease association data to the human kinome tree. To this end, preprocessed data from freely-available sources, such as ChEMBL, the Protein Data Bank, and the Center for Therapeutic Target Validation platform are integrated into KinMap and can easily be complemented by proprietary data. The value of KinMap will be exemplarily demonstrated for uncovering new therapeutic indications of known kinase inhibitors and for prioritizing kinases for drug development efforts. CONCLUSION: KinMap represents a new generation of kinome tree viewers which facilitates interactive exploration of the human kinome. KinMap enables generation of high-quality annotated images of the human kinome tree as well as exchange of kinome-related data in scientific communications. Furthermore, KinMap supports multiple input and output formats and recognizes alternative kinase names and links them to a unified naming scheme, which makes it a useful tool across different disciplines and applications. A web-service of KinMap is freely available at http://www.kinhub.org/kinmap/. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12859-016-1433-7) contains supplementary material, which is available to authorized users. BioMed Central 2017-01-05 /pmc/articles/PMC5217312/ /pubmed/28056780 http://dx.doi.org/10.1186/s12859-016-1433-7 Text en © The Author(s). 2017 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. |
spellingShingle | Software Eid, Sameh Turk, Samo Volkamer, Andrea Rippmann, Friedrich Fulle, Simone KinMap: a web-based tool for interactive navigation through human kinome data |
title | KinMap: a web-based tool for interactive navigation through human kinome data |
title_full | KinMap: a web-based tool for interactive navigation through human kinome data |
title_fullStr | KinMap: a web-based tool for interactive navigation through human kinome data |
title_full_unstemmed | KinMap: a web-based tool for interactive navigation through human kinome data |
title_short | KinMap: a web-based tool for interactive navigation through human kinome data |
title_sort | kinmap: a web-based tool for interactive navigation through human kinome data |
topic | Software |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5217312/ https://www.ncbi.nlm.nih.gov/pubmed/28056780 http://dx.doi.org/10.1186/s12859-016-1433-7 |
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