Services: recommended interoperability resources

A reusable platform-independent API call component for protein metadata alignment, annotation, and integration across major protein data resources.

Database to retrieve and compare gene expression patterns between animal species. 

 BIII Bio Image informatics Index (www.biii.eu) is a knowledge database of software tools, test image databases and training materials for bio image analysis. Software tools are organized as full protocol of analysis (workflow), specific brick (component) to construct a workflow, or software platform or library (collection).  They are described using Edam Bio Imaging, which is iteratively defined using this website. All entries are exposed following FAIR principles and accessible for other usage with  (ODC-By) v1.0 license.

A framework to map identifiers between various databases.

The Data Stewardship Wizard is an international project to help serious researchers and data stewards with building smart Data Management Plans for FAIR Open Science.

An API SPARQL Endpoint for genetic variants (human disease data).

For analysis of high-throughput sequencing incorporating many tools, training, literature and guides

Created by researchers and data managers professionals, the FAIR Cookbook is an online resource for the Life Sciences with recipes that help the research communities to make and keep data Findable, Accessible, Interoperable and Reusable (FAIR). The FAIR Cookbook guides researchers and data stewards of the Life Science domain in their FAIRification journey and provides policy makers and trainers with practical examples to recommend in their guidance and use in their educational material. As a UK-LU joint Node Service, we will continue the development the FAIR Cookbook as well as collaborate towards its sustainability.

This is a joint Node Service between ELIXIR Luxembourg and ELIXIR UK.

An information and educational resource of inter-related data standards, databases and policies. 

FAIRtracks is a set of JSON Schemas defining a draft minimal standard used to consolidate genomic track metadata from various sources, which can be queried by downstream clients through the TrackFind webtool/API.

g:Profiler is a bioinformatics toolkit for characterising and manipulating gene lists of high-throughput genomic data.

The NHGRI-EBI GWAS Catalog is a quality-controlled, manually curated, literature-derived collection of all published genome-wide association studies.
 

Identifiers.org is a system providing resolvable persistent URIs used to identify data for the scientific community, with a current focus on the Life Sciences domain.

A database framework widely used to support model organism databases. 

A suite of open source tools and formats to enable standards-compliant collection, curation, management, publication and reuse of experiments. 

Jalview is a Win/Mac/Linux/Web interactive graphical interface and command line tool for molecular sequence, alignment and 3D structure bioinformatics resource interoperability.

A software package to help researchers set up an online database application that supports data queries and allows data sharing.

The Omics Discovery Index provides a knowledge discovery framework across heterogeneous omics data (genomics, proteomics, transcriptomics and metabolomics). It indexes metadata from more than 20 omics resources across four continents.

Plant-oriented online resource for comparative, evolutionary and functional genomics.

The ELIXIR Research Data Management Kit (RDMkit) is an online guide containing best practices in data management applicable to research projects from the beginning to the end. RDMkit is developed and managed by people who work every day with life science data. 

The Ontology Lookup Service (OLS) provides a web service interface to query multiple ontologies from a single location with a unified output format.