oposSOM-Browser: an interactive tool to explore omics data landscapes in health science

BACKGROUND: oposSOM is a comprehensive, machine learning based open-source data analysis software combining functionalities such as diversity analyses, biomarker selection, function mining, and visualization. RESULTS: These functionalities are now available as interactive web-browser application for...

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Autores principales: Loeffler-Wirth, Henry, Reikowski, Jasmin, Hakobyan, Siras, Wagner, Jonas, Binder, Hans
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2020
Materias:
Software
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7574456/
https://www.ncbi.nlm.nih.gov/pubmed/33076824
http://dx.doi.org/10.1186/s12859-020-03806-w
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author Loeffler-Wirth, Henry
Reikowski, Jasmin
Hakobyan, Siras
Wagner, Jonas
Binder, Hans
author_facet Loeffler-Wirth, Henry
Reikowski, Jasmin
Hakobyan, Siras
Wagner, Jonas
Binder, Hans
author_sort Loeffler-Wirth, Henry
collection PubMed
description BACKGROUND: oposSOM is a comprehensive, machine learning based open-source data analysis software combining functionalities such as diversity analyses, biomarker selection, function mining, and visualization. RESULTS: These functionalities are now available as interactive web-browser application for a broader user audience interested in extracting detailed information from high-throughput omics data sets pre-processed by oposSOM. It enables interactive browsing of single-gene and gene set profiles, of molecular ‘portrait landscapes’, of associated phenotype diversity, and signalling pathway activation patterns. CONCLUSION: The oposSOM-Browser makes available interactive data browsing for five transcriptome data sets of cancer (melanomas, B-cell lymphomas, gliomas) and of peripheral blood (sepsis and healthy individuals) at www.izbi.uni-leipzig.de/opossom-browser.
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spelling pubmed-75744562020-10-20 oposSOM-Browser: an interactive tool to explore omics data landscapes in health science Loeffler-Wirth, Henry Reikowski, Jasmin Hakobyan, Siras Wagner, Jonas Binder, Hans BMC Bioinformatics Software BACKGROUND: oposSOM is a comprehensive, machine learning based open-source data analysis software combining functionalities such as diversity analyses, biomarker selection, function mining, and visualization. RESULTS: These functionalities are now available as interactive web-browser application for a broader user audience interested in extracting detailed information from high-throughput omics data sets pre-processed by oposSOM. It enables interactive browsing of single-gene and gene set profiles, of molecular ‘portrait landscapes’, of associated phenotype diversity, and signalling pathway activation patterns. CONCLUSION: The oposSOM-Browser makes available interactive data browsing for five transcriptome data sets of cancer (melanomas, B-cell lymphomas, gliomas) and of peripheral blood (sepsis and healthy individuals) at www.izbi.uni-leipzig.de/opossom-browser. BioMed Central 2020-10-19 /pmc/articles/PMC7574456/ /pubmed/33076824 http://dx.doi.org/10.1186/s12859-020-03806-w Text en © The Author(s) 2020 Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. 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 in a credit line to the data.
spellingShingle Software
Loeffler-Wirth, Henry
Reikowski, Jasmin
Hakobyan, Siras
Wagner, Jonas
Binder, Hans
oposSOM-Browser: an interactive tool to explore omics data landscapes in health science
title oposSOM-Browser: an interactive tool to explore omics data landscapes in health science
title_full oposSOM-Browser: an interactive tool to explore omics data landscapes in health science
title_fullStr oposSOM-Browser: an interactive tool to explore omics data landscapes in health science
title_full_unstemmed oposSOM-Browser: an interactive tool to explore omics data landscapes in health science
title_short oposSOM-Browser: an interactive tool to explore omics data landscapes in health science
title_sort opossom-browser: an interactive tool to explore omics data landscapes in health science
topic Software
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7574456/
https://www.ncbi.nlm.nih.gov/pubmed/33076824
http://dx.doi.org/10.1186/s12859-020-03806-w
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