Fast visual exploration of mass spectrometry images with interactive dynamic spectral similarity pseudocoloring

Abstract Mass Spectrometry Imaging (MSI) is an established and still evolving technique for the spatial analysis of molecular co-location in biological samples. Nowadays, MSI is expanding into new domains such as clinical pathology. In order to increase the value of MSI data, software for visual ana...

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Autores principales:	Karsten Wüllems, Annika Zurowietz, Martin Zurowietz, Roland Schneider, Hanna Bednarz, Karsten Niehaus, Tim W. Nattkemper
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/e549685c23ec4d5baab14dc6be48946a
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spelling	oai:doaj.org-article:e549685c23ec4d5baab14dc6be48946a2021-12-02T13:30:11ZFast visual exploration of mass spectrometry images with interactive dynamic spectral similarity pseudocoloring10.1038/s41598-021-84049-42045-2322https://doaj.org/article/e549685c23ec4d5baab14dc6be48946a2021-02-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-84049-4https://doaj.org/toc/2045-2322Abstract Mass Spectrometry Imaging (MSI) is an established and still evolving technique for the spatial analysis of molecular co-location in biological samples. Nowadays, MSI is expanding into new domains such as clinical pathology. In order to increase the value of MSI data, software for visual analysis is required that is intuitive and technique independent. Here, we present QUIMBI (QUIck exploration tool for Multivariate BioImages) a new tool for the visual analysis of MSI data. QUIMBI is an interactive visual exploration tool that provides the user with a convenient and straightforward visual exploration of morphological and spectral features of MSI data. To improve the overall quality of MSI data by reducing non-tissue specific signals and to ensure optimal compatibility with QUIMBI, the tool is combined with the new pre-processing tool ProViM (Processing for Visualization and multivariate analysis of MSI Data), presented in this work. The features of the proposed visual analysis approach for MSI data analysis are demonstrated with two use cases. The results show that the use of ProViM and QUIMBI not only provides a new fast and intuitive visual analysis, but also allows the detection of new co-location patterns in MSI data that are difficult to find with other methods.Karsten WüllemsAnnika ZurowietzMartin ZurowietzRoland SchneiderHanna BednarzKarsten NiehausTim W. NattkemperNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-15 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Karsten Wüllems Annika Zurowietz Martin Zurowietz Roland Schneider Hanna Bednarz Karsten Niehaus Tim W. Nattkemper Fast visual exploration of mass spectrometry images with interactive dynamic spectral similarity pseudocoloring
description	Abstract Mass Spectrometry Imaging (MSI) is an established and still evolving technique for the spatial analysis of molecular co-location in biological samples. Nowadays, MSI is expanding into new domains such as clinical pathology. In order to increase the value of MSI data, software for visual analysis is required that is intuitive and technique independent. Here, we present QUIMBI (QUIck exploration tool for Multivariate BioImages) a new tool for the visual analysis of MSI data. QUIMBI is an interactive visual exploration tool that provides the user with a convenient and straightforward visual exploration of morphological and spectral features of MSI data. To improve the overall quality of MSI data by reducing non-tissue specific signals and to ensure optimal compatibility with QUIMBI, the tool is combined with the new pre-processing tool ProViM (Processing for Visualization and multivariate analysis of MSI Data), presented in this work. The features of the proposed visual analysis approach for MSI data analysis are demonstrated with two use cases. The results show that the use of ProViM and QUIMBI not only provides a new fast and intuitive visual analysis, but also allows the detection of new co-location patterns in MSI data that are difficult to find with other methods.
format	article
author	Karsten Wüllems Annika Zurowietz Martin Zurowietz Roland Schneider Hanna Bednarz Karsten Niehaus Tim W. Nattkemper
author_facet	Karsten Wüllems Annika Zurowietz Martin Zurowietz Roland Schneider Hanna Bednarz Karsten Niehaus Tim W. Nattkemper
author_sort	Karsten Wüllems
title	Fast visual exploration of mass spectrometry images with interactive dynamic spectral similarity pseudocoloring
title_short	Fast visual exploration of mass spectrometry images with interactive dynamic spectral similarity pseudocoloring
title_full	Fast visual exploration of mass spectrometry images with interactive dynamic spectral similarity pseudocoloring
title_fullStr	Fast visual exploration of mass spectrometry images with interactive dynamic spectral similarity pseudocoloring
title_full_unstemmed	Fast visual exploration of mass spectrometry images with interactive dynamic spectral similarity pseudocoloring
title_sort	fast visual exploration of mass spectrometry images with interactive dynamic spectral similarity pseudocoloring
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/e549685c23ec4d5baab14dc6be48946a
work_keys_str_mv	AT karstenwullems fastvisualexplorationofmassspectrometryimageswithinteractivedynamicspectralsimilaritypseudocoloring AT annikazurowietz fastvisualexplorationofmassspectrometryimageswithinteractivedynamicspectralsimilaritypseudocoloring AT martinzurowietz fastvisualexplorationofmassspectrometryimageswithinteractivedynamicspectralsimilaritypseudocoloring AT rolandschneider fastvisualexplorationofmassspectrometryimageswithinteractivedynamicspectralsimilaritypseudocoloring AT hannabednarz fastvisualexplorationofmassspectrometryimageswithinteractivedynamicspectralsimilaritypseudocoloring AT karstenniehaus fastvisualexplorationofmassspectrometryimageswithinteractivedynamicspectralsimilaritypseudocoloring AT timwnattkemper fastvisualexplorationofmassspectrometryimageswithinteractivedynamicspectralsimilaritypseudocoloring
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Fast visual exploration of mass spectrometry images with interactive dynamic spectral similarity pseudocoloring

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