Molecular Biophysics Database (MBDB) makes raw measurements findable and reusable

Open science is now established as an important paradigm for publicly funded research. The main principle being that to ensure best use of research data and integrity of the scientific process the information from experiments should be made widely and freely available. However, dedicated technical infrastructure to enable useful access to comprehensive experimental information in molecular biophysics is lacking, in particular in regard to repositories for raw measurement data. The Molecular Biophysics Database (MBDB) was created to fill this gap. The MBDB provides a common and extensible framework to store and access raw measurement data from a growing number of biophysical methods, currently including bio-layer interferometry, isothermal titration calorimetry, surface plasmon resonance, and microscale thermophoresis, with additional methods planned for the future. Alongside the raw measurement data from these methods, a rich set of metadata to enable data reuse is captured in accordance with the FAIR data management principles. An overview of the data models and technologies that were used to create the MBDB is presented here.

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Publication Details

Journal
European Biophysics Journal
Published
2025-08-10
DOI
https://doi.org/10.1007/s00249-025-01789-1
Primary Topic
Scientific Computing and Data Management
Type
article
Field-Weighted Citation Impact
0.00

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article

Molecular Biophysics Database (MBDB) makes raw measurements findable and reusable

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European Biophysics Journal
Scientific Computing and Data Management
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Molecular Biophysics Database (MBDB) makes raw measurements findable and reusable

Michal Malý, Miroslav Šimek, Jan Stránský, Juan Sabín, Miroslav Strnad, Jan Dohnálek, Mark A. Williams, Emil Dandanell Agerschou, Andrea Santisteban-Veiga, Terezie Prchalová
article en

Abstract

Open science is now established as an important paradigm for publicly funded research. The main principle being that to ensure best use of research data and integrity of the scientific process the information from experiments should be made widely and freely available. However, dedicated technical infrastructure to enable useful access to comprehensive experimental information in molecular biophysics is lacking, in particular in regard to repositories for raw measurement data. The Molecular Biophysics Database (MBDB) was created to fill this gap. The MBDB provides a common and extensible framework to store and access raw measurement data from a growing number of biophysical methods, currently including bio-layer interferometry, isothermal titration calorimetry, surface plasmon resonance, and microscale thermophoresis, with additional methods planned for the future. Alongside the raw measurement data from these methods, a rich set of metadata to enable data reuse is captured in accordance with the FAIR data management principles. An overview of the data models and technologies that were used to create the MBDB is presented here.

European Biophysics Journal
Czech Academy of Sciences (CZ), Czech Academy of Sciences, Institute of Biotechnology (CZ), Instituto de Investigaciones Agrobiológicas de Galicia (ES), CESNET, zájmové sdružení právnických osob (CZ), Birkbeck, University of London (GB)
Ministerstvo Školství, Mládeže a Tělovýchovy, Akademie Věd České Republiky, Horizon 2020 Framework Programme
Industry, innovation and infrastructure
Openalex Percentile: Top 80%
Scientific Computing and Data Management
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