XenMine has been created to view, search and analyze Xenopus data, and provides essential information on gene expression changes and regulatory elements present in the genome. It contains published genomic datasets from both Xenopus tropicalis and Xenopus laevis.

BossDB is a volumetric database for 3D and 4D neuroscience data.

The Center for Expanded Data Annotation and Retrieval (CEDAR) Workbench is a database of metadata templates that define the data elements needed to describe particular types of biomedical experiments. The templates include controlled terms and synonyms for specific data elements. CEDAR is an end-to-end process that enables community-based organizations to collaborate to create metadata templates, investigators or curators to use the templates to define the metadata for individual experiments, and scientists to search the metadata to access and analyze the corresponding online datasets.

NARCIS provides access to scientific information, including (open access) publications from the repositories of all the Dutch universities, KNAW, NWO and a number of research institutes, which is not referenced in other citation databases.

The Mouse Tumor Biology (MTB) Database supports the use of the mouse as a model system of human cancers by providing access to information on and data for: spontaneous and induced tumors in mice, genetically defined mice (inbred, hybrid, mutant, and genetically engineered strains of mice) in which tumors arise, genetic factors associated with tumor susceptibility in mice, somatic genetic-mutations observed in tumors, and Patient Derived Xenograft (PDX) models.

NASA/IPAC Extragalactic Database (NED) is a comprehensive database of multiwavelength data for extragalactic objects, providing a systematic, ongoing fusion of information integrated from hundreds of large sky surveys and tens of thousands of research publications. The contents and services span the entire observed spectrum from gamma rays through radio frequencies. As new observations are published, they are cross- identified or statistically associated with previous data and integrated into a unified database to simplify queries and retrieval.

CAPS-DB is a structural classification of helix-cappings or caps compiled from protein structures. Caps extracted from protein structures have been structurally classified based on geometry and conformation and organized in a tree-like hierarchical classification where the different levels correspond to different properties of the caps.

ChemIDplus is a web-based search system that provides access to structure and nomenclature authority files used for the identification of chemical substances cited in National Library of Medicine (NLM) databases. It also provides structure searching and direct links to many biomedical resources at NLM and on the Internet for chemicals of interest.

We describe the Mitochondrial and Nuclear rRNA fragment database (MINRbase), a knowledge repository aimed at facilitating the study of ribosomal RNA-derived fragments (rRFs). MINRbase provides interactive access to the profiles of 130 238 expressed rRFs arising from the four human nuclear rRNAs (18S, 5.8S, 28S, 5S), two mitochondrial rRNAs (12S, 16S) or four spacers of 45S pre-rRNA. We compiled these profiles by analyzing 11 632 datasets, including the GEUVADIS and The Cancer Genome Atlas (TCGA) repositories. MINRbase offers a user-friendly interface that lets researchers issue complex queries based on one or more criteria, such as parental rRNA identity, nucleotide sequence, rRF minimum abundance and metadata keywords (e.g. tissue type, disease). A 'summary' page for each rRF provides a granular breakdown of its expression by tissue type, disease, sex, ancestry and other variables; it also allows users to create publication-ready plots at the click of a button. MINRbase has already allowed us to generate support for three novel observations: the internal spacers of 45S are prolific producers of abundant rRFs; many abundant rRFs straddle the known boundaries of rRNAs; rRF production is regimented and depends on 'personal attributes' (sex, ancestry) and 'context' (tissue type, tissue state, disease). MINRbase is available at https://cm.jefferson.edu/MINRbase/.

The Encyclopedia of Life (EOL) is a collaborative encyclopedia to describe all known living species. It identifies sources of biodiversity knowledge that are legally and practically shareable; integrates them with other sources and adds metadata; provides searching and other services; and collaborates with other projects to support data sharing.