oposSOM-Browser: an interactive tool to explore omics data landscapes in health science
Abstract 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 applicat...
| Main Authors: | , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
BMC
2020-10-01
|
| Series: | BMC Bioinformatics |
| Subjects: | |
| Online Access: | http://link.springer.com/article/10.1186/s12859-020-03806-w |
| _version_ | 1818655250426363904 |
|---|---|
| author | Henry Loeffler-Wirth Jasmin Reikowski Siras Hakobyan Jonas Wagner Hans Binder |
| author_facet | Henry Loeffler-Wirth Jasmin Reikowski Siras Hakobyan Jonas Wagner Hans Binder |
| author_sort | Henry Loeffler-Wirth |
| collection | DOAJ |
| description | Abstract 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 . |
| first_indexed | 2024-12-17T03:06:42Z |
| format | Article |
| id | doaj.art-a5bf3188f77445a3922ef4b678b3d89e |
| institution | Directory Open Access Journal |
| issn | 1471-2105 |
| language | English |
| last_indexed | 2024-12-17T03:06:42Z |
| publishDate | 2020-10-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Bioinformatics |
| spelling | doaj.art-a5bf3188f77445a3922ef4b678b3d89e2022-12-21T22:05:55ZengBMCBMC Bioinformatics1471-21052020-10-012111510.1186/s12859-020-03806-woposSOM-Browser: an interactive tool to explore omics data landscapes in health scienceHenry Loeffler-Wirth0Jasmin Reikowski1Siras Hakobyan2Jonas Wagner3Hans Binder4Interdisciplinary Centre for Bioinformatics, Leipzig UniversityInterdisciplinary Centre for Bioinformatics, Leipzig UniversityGroup of Bioinformatics, Institute of Molecular Biology, National Academy of SciencesLIFE, Leipzig Research Center for Civilization Diseases, Leipzig UniversityInterdisciplinary Centre for Bioinformatics, Leipzig UniversityAbstract 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 .http://link.springer.com/article/10.1186/s12859-020-03806-wInteractive data analysisTranscriptomicsResults browser |
| spellingShingle | Henry Loeffler-Wirth Jasmin Reikowski Siras Hakobyan Jonas Wagner Hans Binder oposSOM-Browser: an interactive tool to explore omics data landscapes in health science BMC Bioinformatics Interactive data analysis Transcriptomics Results browser |
| 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 | Interactive data analysis Transcriptomics Results browser |
| url | http://link.springer.com/article/10.1186/s12859-020-03806-w |
| work_keys_str_mv | AT henryloefflerwirth opossombrowseraninteractivetooltoexploreomicsdatalandscapesinhealthscience AT jasminreikowski opossombrowseraninteractivetooltoexploreomicsdatalandscapesinhealthscience AT sirashakobyan opossombrowseraninteractivetooltoexploreomicsdatalandscapesinhealthscience AT jonaswagner opossombrowseraninteractivetooltoexploreomicsdatalandscapesinhealthscience AT hansbinder opossombrowseraninteractivetooltoexploreomicsdatalandscapesinhealthscience |