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"https://publications-affiliated.scilifelab.se/researcher/38277bc865f047df8c4523ebf0f1261c.json"}}, {"family": "Saalfeld", "given": "Stephan", "initials": "S", "orcid": "0000-0002-4106-1761", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/11e2453103c0410581737e66c33afec9.json"}}, {"family": "Stegle", "given": "Oliver", "initials": "O", "orcid": "0000-0002-8818-7193", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/73e53d349cfa48458444d75b18cf6d75.json"}}, {"family": "Theis", "given": "Fabian J", "initials": "FJ", "orcid": "0000-0002-2419-1943", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/8969d033a36f40aab191ad1b3960114d.json"}}, {"family": "Swedlow", "given": "Jason R", "initials": "JR", "orcid": "0000-0002-2198-1958", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/919be1b6ecf34615a2c3e2a05f6c01de.json"}}], "type": "journal article", "published": "2023-09-00", "journal": {"title": "Histochem Cell Biol", "issn": "1432-119X", "volume": "160", "issue": "3", "pages": "223-251", "issn-l": null}, "abstract": "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 and institutes across diverse modalities facing these problems have designed a format specification process (OME-NGFF) to address these needs. This paper brings together a wide range of those community members to describe the cloud-optimized format itself-OME-Zarr-along with tools and data resources available today to increase FAIR access and remove barriers in the scientific process. The current momentum offers an opportunity to unify a key component of the bioimaging domain-the file format that underlies so many personal, institutional, and global data management and analysis tasks.", "doi": "10.1007/s00418-023-02209-1", "pmid": "37428210", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC10492740"}, {"db": "pii", "key": "10.1007/s00418-023-02209-1"}], "notes": [], "created": "2026-08-20T06:39:48.671Z", "modified": "2026-08-20T06:39:51.326Z"}, {"entity": "publication", "iuid": "a03d7d7db4af4dc482c16af3f719109f", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/a03d7d7db4af4dc482c16af3f719109f.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/a03d7d7db4af4dc482c16af3f719109f"}}, "title": "Organ Mapping Antibody Panels: a community resource for standardized multiplexed tissue imaging.", "authors": [{"family": "Quardokus", "given": "Ellen M", "initials": "EM", "orcid": "0000-0001-7655-4833", 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Methods", "issn": "1548-7105", "volume": "20", "issue": "8", "pages": "1174-1178", "issn-l": "1548-7091"}, "abstract": "Multiplexed antibody-based imaging enables the detailed characterization of molecular and cellular organization in tissues. Advances in the field now allow high-parameter data collection (>60 targets); however, considerable expertise and capital are needed to construct the antibody panels employed by these methods. 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"initials": "N", "orcid": "0000-0003-0327-8297", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/83f7f88927584d80b6b5a5447b20dfdb.json"}}, {"family": "Haniffa", "given": "Muzlifah", "initials": "M", "orcid": "0000-0002-3927-2084", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/0702147e80fd42358ad19a66451e2442.json"}}, {"family": "Hotaling", "given": "Nathan", "initials": "N", "orcid": "0000-0001-8423-6464", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e526892854084fe5ab16081f86d38d22.json"}}, {"family": "Onami", "given": "Shuichi", "initials": "S", "orcid": "0000-0002-8255-1724", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/83ea9aff97ad4f03ac4982160b20365f.json"}}, {"family": "Royer", "given": "Loic A", "initials": "LA", "orcid": "0000-0002-9991-9724", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/38277bc865f047df8c4523ebf0f1261c.json"}}, {"family": "Saalfeld", "given": "Stephan", "initials": "S", "orcid": "0000-0002-4106-1761", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/11e2453103c0410581737e66c33afec9.json"}}, {"family": "Stegle", "given": "Oliver", "initials": "O", "orcid": "0000-0002-8818-7193", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/73e53d349cfa48458444d75b18cf6d75.json"}}, {"family": "Theis", "given": "Fabian J", "initials": "FJ", "orcid": "0000-0002-2419-1943", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/8969d033a36f40aab191ad1b3960114d.json"}}, {"family": "Swedlow", "given": "Jason R", "initials": "JR", "orcid": "0000-0002-2198-1958", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/919be1b6ecf34615a2c3e2a05f6c01de.json"}}], "type": "preprint", "published": "2023-05-07", "journal": {"title": "bioRxiv", "issn": "2692-8205", "issn-l": null}, "abstract": "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 and institutes across diverse modalities facing these problems have designed a format specification process (OME-NGFF) to address these needs. This paper brings together a wide range of those community members to describe the cloud-optimized format itself -- OME-Zarr -- along with tools and data resources available today to increase FAIR access and remove barriers in the scientific process. The current momentum offers an opportunity to unify a key component of the bioimaging domain -- the file format that underlies so many personal, institutional, and global data management and analysis tasks.", "doi": "10.1101/2023.02.17.528834", "pmid": "36865282", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC9980008"}, {"db": "pii", "key": "2023.02.17.528834"}], "notes": [], "created": "2026-08-20T10:43:56.007Z", "modified": "2026-08-20T10:43:56.716Z"}]}