Compressed AFM-IR hyperspectral nanoimaging

Detalhes bibliográficos
Autor(a) principal: Kästner, B.
Data de Publicação: 2024
Outros Autores: Marschall, M., Hornemann, A., Metzner, S., Patoka, P., Cortes, S., Wübbeler, G., Hoehl, A., Rühl, E., Elster, C.
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
Texto Completo: http://hdl.handle.net/10362/163239
Resumo: Funding Information: We gratefully acknowledge fruitful discussions with Alexander Govyadinov. We acknowledge financial support by Deutsche Forschungsgemeinschaft (Grants EL 492/1-1, RU 420/13-1). Sofia Cortes was supported by Fundação para a Ciência e Tecnologia (FCT) for funds to GHTM (UID/04413/2020). Publisher Copyright: © 2023 The Author(s). Published by IOP Publishing Ltd.
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spelling Compressed AFM-IR hyperspectral nanoimagingAFM-IRhyperspectral nanoimagingLeishmania parasiteslow-rank matrix reconstructionInstrumentationEngineering (miscellaneous)Applied MathematicsSDG 3 - Good Health and Well-beingSDG 9 - Industry, Innovation, and InfrastructureFunding Information: We gratefully acknowledge fruitful discussions with Alexander Govyadinov. We acknowledge financial support by Deutsche Forschungsgemeinschaft (Grants EL 492/1-1, RU 420/13-1). Sofia Cortes was supported by Fundação para a Ciência e Tecnologia (FCT) for funds to GHTM (UID/04413/2020). Publisher Copyright: © 2023 The Author(s). Published by IOP Publishing Ltd.Infrared (IR) hyperspectral imaging is a powerful approach in the field of materials and life sciences. However, for the extension to modern sub-diffraction nanoimaging it still remains a highly inefficient technique, as it acquires data via inherent sequential schemes. Here, we introduce the mathematical technique of low-rank matrix reconstruction to the sub-diffraction scheme of atomic force microscopy-based infrared spectroscopy (AFM-IR), for efficient hyperspectral IR nanoimaging. To demonstrate its application potential, we chose the trypanosomatid unicellular parasites Leishmania species as a realistic target of biological importance. The mid-IR spectral fingerprint window covering the spectral range from 1300 to 1900 cm−1 was chosen and a distance between the data points of 220 nm was used for nanoimaging of single parasites. The method of k-means cluster analysis was used for extracting the chemically distinct spatial locations. Subsequently, we randomly selected only 10% of an originally gathered data cube of 134 (x) × 50 (y) × 148 (spectral) AFM-IR measurements and completed the full data set by low-rank matrix reconstruction. This approach shows agreement in the cluster regions between full and reconstructed data cubes. Furthermore, we show that the results of the low-rank reconstruction are superior compared to alternative interpolation techniques in terms of error-metrics, cluster quality, and spectral interpretation for various subsampling ratios. We conclude that by using low-rank matrix reconstruction the data acquisition time can be reduced from more than 14 h to 1-2 h. These findings can significantly boost the practical applicability of hyperspectral nanoimaging in both academic and industrial settings involving nano- and bio-materials.Vector borne diseases and pathogens (VBD)Global Health and Tropical Medicine (GHTM)Instituto de Higiene e Medicina Tropical (IHMT)RUNKästner, B.Marschall, M.Hornemann, A.Metzner, S.Patoka, P.Cortes, S.Wübbeler, G.Hoehl, A.Rühl, E.Elster, C.2024-02-08T00:17:13Z2024-012024-01-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article8application/pdfhttp://hdl.handle.net/10362/163239eng0957-0233PURE: 82852880https://doi.org/10.1088/1361-6501/acfc27info:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2024-03-11T05:46:21Zoai:run.unl.pt:10362/163239Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-20T03:59:19.295294Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse
dc.title.none.fl_str_mv Compressed AFM-IR hyperspectral nanoimaging
title Compressed AFM-IR hyperspectral nanoimaging
spellingShingle Compressed AFM-IR hyperspectral nanoimaging
Kästner, B.
AFM-IR
hyperspectral nanoimaging
Leishmania parasites
low-rank matrix reconstruction
Instrumentation
Engineering (miscellaneous)
Applied Mathematics
SDG 3 - Good Health and Well-being
SDG 9 - Industry, Innovation, and Infrastructure
title_short Compressed AFM-IR hyperspectral nanoimaging
title_full Compressed AFM-IR hyperspectral nanoimaging
title_fullStr Compressed AFM-IR hyperspectral nanoimaging
title_full_unstemmed Compressed AFM-IR hyperspectral nanoimaging
title_sort Compressed AFM-IR hyperspectral nanoimaging
author Kästner, B.
author_facet Kästner, B.
Marschall, M.
Hornemann, A.
Metzner, S.
Patoka, P.
Cortes, S.
Wübbeler, G.
Hoehl, A.
Rühl, E.
Elster, C.
author_role author
author2 Marschall, M.
Hornemann, A.
Metzner, S.
Patoka, P.
Cortes, S.
Wübbeler, G.
Hoehl, A.
Rühl, E.
Elster, C.
author2_role author
author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv Vector borne diseases and pathogens (VBD)
Global Health and Tropical Medicine (GHTM)
Instituto de Higiene e Medicina Tropical (IHMT)
RUN
dc.contributor.author.fl_str_mv Kästner, B.
Marschall, M.
Hornemann, A.
Metzner, S.
Patoka, P.
Cortes, S.
Wübbeler, G.
Hoehl, A.
Rühl, E.
Elster, C.
dc.subject.por.fl_str_mv AFM-IR
hyperspectral nanoimaging
Leishmania parasites
low-rank matrix reconstruction
Instrumentation
Engineering (miscellaneous)
Applied Mathematics
SDG 3 - Good Health and Well-being
SDG 9 - Industry, Innovation, and Infrastructure
topic AFM-IR
hyperspectral nanoimaging
Leishmania parasites
low-rank matrix reconstruction
Instrumentation
Engineering (miscellaneous)
Applied Mathematics
SDG 3 - Good Health and Well-being
SDG 9 - Industry, Innovation, and Infrastructure
description Funding Information: We gratefully acknowledge fruitful discussions with Alexander Govyadinov. We acknowledge financial support by Deutsche Forschungsgemeinschaft (Grants EL 492/1-1, RU 420/13-1). Sofia Cortes was supported by Fundação para a Ciência e Tecnologia (FCT) for funds to GHTM (UID/04413/2020). Publisher Copyright: © 2023 The Author(s). Published by IOP Publishing Ltd.
publishDate 2024
dc.date.none.fl_str_mv 2024-02-08T00:17:13Z
2024-01
2024-01-01T00:00:00Z
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://hdl.handle.net/10362/163239
url http://hdl.handle.net/10362/163239
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv 0957-0233
PURE: 82852880
https://doi.org/10.1088/1361-6501/acfc27
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv 8
application/pdf
dc.source.none.fl_str_mv reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron:RCAAP
instname_str Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron_str RCAAP
institution RCAAP
reponame_str Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
collection Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
repository.name.fl_str_mv Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
repository.mail.fl_str_mv
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