Data-intensive research depends on tools that manage multi-dimensional, heterogeneous data sets. We have built OME Remote Objects (OMERO), a software platform that enables access to and use of a wide range of biological data. OMERO uses a server-based middleware application to provide a unified interface for images, matrices, and tables. OMERO’s design and flexibility have enabled its use for light microscopy, high content screening, electron microscopy, and even non-image genotype data. OMERO is open source software and available at http://openmicroscopy.org.

Fibre Multi-Object Spectrograph (FMOS) is the first near-infrared instrument with a wide field of view capable of acquiring spectra simultaneously from up to 400 objects. It has been developed as a common-use instrument for the F$/$2 prime-focus of the Subaru Telescope. The field coverage of 30$^\prime$ diameter is achieved using a new 3-element corrector optimized in the near-infrared (0.9–1.8$\ \mu$m) wavelength range. Due to limited space at the prime-focus, we have had to develop a novel fibre positioner, called “Echidna”, together with two OH-airglow suppressed spectrographs. FMOS consists of three subsystems: the prime focus unit for IR, the fibre positioning system/connector units, and the two spectrographs. After full systems integration, FMOS was installed on the telescope in late 2007. Many aspects of the performance were checked through various test and engineering observations. In this paper, we present the optical and mechanical components of FMOS, and show the results of our on-sky engineering observations to date.

HighlightsHCS data management is challenging due to its scale, complexity and heterogeneity.OMERO and Bio-Formats are open-source tools for data access and management at scale.OMERO and Bio-Formats can handle images, experimental metadata and analytic outputs.Repositories integrating multiple image-based studies provide tests of the value of data integration.

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 and usually contain a combination of binary pixel data and metadata that describe the acquisition process and any derived results. The OMERO image data management platform allows users to securely share image datasets according to specific permissions levels: data can be held privately, shared with a set of colleagues, or made available via a public URL. Users control access by assigning data to specific Groups with defined membership and access rights. OMERO’s Permission system supports simple data sharing in a lab, collaborative data analysis, and even teaching environments. OMERO software is open source and released by the OME Consortium at www.openmicroscopy.org.