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Article
Open AccessSpatialData: an open and universal data framework for spatial omics
Spatially resolved omics technologies are transforming our understanding of biological tissues. However, the handling of uni- and multimodal spatial omics datasets remains a challenge owing to large data volum...
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Article
Open AccessOME-Zarr: a cloud-optimized bioimaging file format with international community support
A growing community is constructing a next-generation file format (NGFF) for bioimaging to overcome problems of scalability and heterogeneity. Organized by the Open Microscopy Environment (OME), individuals an...
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Article
MoBIE: a Fiji plugin for sharing and exploration of multi-modal cloud-hosted big image data
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Article
Open AccessOME-NGFF: a next-generation file format for expanding bioimaging data-access strategies
The rapid pace of innovation in biological imaging and the diversity of its applications have prevented the establishment of a community-agreed standardized data format. We propose that complementing establish...
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Article
REMBI: Recommended Metadata for Biological Images—enabling reuse of microscopy data in biology
Bioimaging data have significant potential for reuse, but unlocking this potential requires systematic archiving of data and metadata in public databases. We propose draft metadata guidelines to begin addressi...
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Chapter and Conference Paper
ISO 23494: Biotechnology – Provenance Information Model for Biological Specimen And Data
Exchange of research data and samples in biomedical research has become a common phenomenon, demanding for their effective quality assessment. At the same time, several reports address reproducibility of resea...
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Chapter and Conference Paper
Correction to: ISO 23494: Biotechnology – Provenance Information Model for Biological Specimen And Data
In the originally published version, the DOI in Reference 7 “Wittner, R., et al.: EOSClife common provenance model. EOSC-Life deliverable D6.2 (2021)” on p.225 was missing. The DOI “10.5281/zenodo.4705074” has...
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Chapter and Conference Paper
Bringing Open Data to Whole Slide Imaging
Faced with the need to support a growing number of whole slide imaging (WSI) file formats, our team has extended a long-standing community file format (OME-TIFF) for use in digital pathology. The format makes ...
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Article
Publisher Correction: Image Data Resource: a bioimage data integration and publication platform
This paper was originally published under standard Nature America Inc. copyright. As of the date of this correction, the Resource is available online as an open-access paper with a CC-BY license. No other part...
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Article
Open AccessImage Data Resource: a bioimage data integration and publication platform
This Resource describes the Image Data Resource (IDR), a prototype online system for biological image data that links experimental and analytic data across multiple data sets and promotes image data sharing an...
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Article
Open AccessPublishing and sharing multi-dimensional image data with OMERO
Imaging data are used in the life and biomedical sciences to measure the molecular and structural composition and dynamics of cells, tissues, and organisms. Datasets range in size from megabytes to terabytes a...
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Article
OMERO: flexible, model-driven data management for experimental biology
The Open Microscopy Environment Remote Objects (OMERO) software platform provides a server-based system for managing and analyzing microscopy images and non-image data.
