Tag: biological imaging

The Human Protein Atlas is program started with the aim to map of all the human proteins in cells, tissues and organs using integration of various omics technologies. It consists of three parts: Tissue Atlas showing the distribution of proteins acros ...

Cryo-electron microscopy reconstruction methods are uniquely able to reveal structures of many important macromolecules and macromolecular complexes. The Electron Microscopy Data Bank (EMDB) is a public repository for electron microscopy density maps ...

MitoCheck aims to integrate information on cellular function of human genes while giving access to supporting information such as microscopy images of phenotypes.

OME develops open-source software and data format standards for the storage and manipulation of biological microscopy data. It is a joint project between universities, research establishments, industry and the software development community. The purp ...

OME-TIFF is a standardized file format for multidimensional image data. OME-TIFF was created to maximize the respective strengths of OME-XML and TIFF. It takes advantage of the metadata defined in OME-XML while retaining the pixels in multi-page TIFF ...

IDR is a prototype platform for publishing, mining and integrating bioimaging data at scale, following the Euro-BioImaging/ELIXIR imaging strategy using the OMERO and Bio-Formats open source software built by the Open Microscopy Environment. Deployed ...

The e-Mouse Atlas (EMA) is a detailed model of the developing mouse. Its purpose is not only to provide information about the shape, gross anatomy and detailed histological structure of the mouse, but also to provide a framework into which informatio ...

Fly-FISH documents the expression and localization patterns of Drosophila mRNAs at the cellular and subcellular level during early embryogenesis and third instar larval tissues. A high-resolution, high-throughput fluorescence detection method is used ...

The COVID-19 Data Portal enables researchers to upload, access and analyse COVID-19 related reference data and specialist datasets. The aim of the COVID-19 Data Portal is to facilitate data sharing and analysis, and to accelerate coronavirus research ...

The Broad Bioimage Benchmark Collection (BBBC) is a collection of freely downloadable microscopy image sets. Researchers are encouraged to use these image sets as reference points when developing, testing, and publishing new image analysis algorithms ...

The BioImage Archive stores and distributes biological images that are useful to life-science researchers. Its development will provide data archiving services to the broader bioimaging database community. This includes added-value bioimaging data re ...

ViBE-Z, the Virtual Brain Explorer for Zebrafish is an imaging and image analysis framework for virtual colocalization studies in larval zebrafish brains, currently available for 72hpf, 48hpf and 96hpf old larvae. ViBE-Z contains a database with prec ...

Aniseed is a database designed to offer a representation of ascidian embryonic development at the level of the genome (cis-regulatory sequences, spatial gene expression, protein annotation), of the cell (cell shapes, fate, lineage) or of the whole em ...

MorphoBank provides a digital archive of biodiversity and evolutionary research data, specifically systematics (the science of determining the evolutionary relationships among species). MorphoBank aids development of the Tree of Life - the genealogy ...

SSBD is a database that collects and shares quantitative biological dynamics data, microscopy images, and software tools. SSBD provides a rich set of resources for analyzing quantitative biological data, such as single-molecule, cell, and gene expres ...

Webservice for 3D+time in vivo, in toto imaging data storage and annotation. Direct access to image processing workflows on EGI and local computer clusters for cell detection, shape segmentation and kinematics analysis with custom designed algorithms ...

A repository of image / SPM data to support users of the Centre for Cell Imaging, University of Liverpool.

Brain Analysis Library of Spatial maps and Atlases (BALSA) is a database for hosting and sharing neuroimaging and neuroanatomical datasets for human and primate species. BALSA houses curated, user-created Study datasets, extensively analyzed neuroima ...

Standards for “Minimum Information about a Animal Spinal Cord Injury Experiment” (MIASCI) facilitates bioinformatic efforts and allow investigators to more accurately replicate and extend studies.

We are a leading national institution in brain MR imaging and molecular imaging (given cyclotron and radiopharmacy facilities). These pillars create the core medical imaging equipment infrastructure in Portugal with relevant scientific productivity n ...

A collection of high resolution histological images from contributors across the Czech Republic.

Haeckaliens is a collection of 3D datasets and reconstructions of embryos obtained with the open-source optical tomography scanner "OPenT" .

This database is in development and as yet does not have a description available .

A database containing the expression patterns of hundreds of Drosophila genes in 3D at cellular resolution.

In addition to data used in on-going collaborations, this database host images from France Bio Imaging microscopy facility with public access either associated to publications, either that make interest from an image processing point of view (such as ...

Bioimg is a central storage server for all the imaging data acquired at the Imaging Units at theWeizmann Institute of Science (WIS) together with instruments of Research Groups in WIS. The data is automatic and incrementally copied to Bioimg several ...

The NeuroNames ontology is designed to accommodate all of the English and Latin names (words and multiword terms) used by neuroscientists to reference all neuroanatomic concepts (word definitions and images) in the neuroscience literature of the last ...

BioImage Informatics Index (BIII) is a bioimaging resource that describes software tools, training materials and imaging datasets with the aim of helping researchers find, identify and propagate image analysis tools or workflows. BIII aims to help bi ...

This database is a collection of quantitative information about cell division dynamics in early Caenorhabditis elegans embryos when each of all essential embryonic genes is silenced individually by RNA interference (RNAi). The information is obtained ...

The Open Microscopy Environment Ontology (OME-OWL) is a light microscopy imaging ontology that has been developed through translation of the OME data model. The aim of this ontology is to support multi-modal imaging technologies and integrate life-sc ...

The Recommended Metadata for Biological Images (REMBI) are a set of guidelines developed by the bioimaging community as a framework for discussing different aspects of useful sharing of imaging data. Its goal is to reach community-wide consensus on t ...

MorphoSource is a digital repository where researchers, museum curators, and the general public can find, download, and upload 3D media representing physical objects, most commonly biological specimens. If you are a researcher, you can use MorphoSour ...

Analyze 7.5 can store voxel-based volumes and consists of two files: One file with the actual data in a binary format with the filename extension .img and another file (header with filename extension .hdr) with information about the data such as voxe ...

The COVID-19 Data Index collects and indexes COVID-19 datasets from major data repositories, publications, and individual online sources. Diverse types of datasets, including clinical, epidemiological, imaging, omics, socio-demographic, environment, ...

The Osteoarthritis Initiative (OAI) is a multi-center, ten-year observational study of men and women to improve the understanding of prevention and treatment of knee osteoarthritis, one of the most common causes of disability in adults. The OAI is a ...

The Hustedt Diatom Collection Database stores information on a large collection of diatom specimens that began with the private collection of Friedrich Hustedt which, in 1968 was housed at the Institut für Meeresforschung in Bremerhaven (now the Alfr ...

The mission of this project was to built a virtual herbarium to display the images of Brazilian plants that are housed in foreign herbaria and was presented by the Brazilian Research Council (CNPq) to the Rio de Janeiro Botanical Garden (JBRJ) in Dec ...

In 2010, Brazil published the Catalog of Plants and Fungi of Brazil and launched the first online version of the List of Species of the Brazilian Flora, meeting Target 1 of the Global Strategy for Plant Conservation (GSPC-CBD). This botanical milesto ...