The EBI search engine: EBI search as a service—making biological data accessible for all

By Young M. Park, Silvano Squizzato, Nicola Buso, Tamer Gur, Rodrigo Lopez. 2017

35 citations recorded by the source corpus.

Abstract We present an update of the EBI Search engine, an easy-to-use fast text search and indexing system with powerful data navigation and retrieval capabilities. The interconnectivity that exists between data resources at EMBL–EBI provides easy, quick and precise navigation and a better understanding of the relationship between different data types that include nucleotide and protein sequences, genes, gene products, proteins, protein domains, protein families, enzymes and macromolecular structures, as well as the life science literature. EBI Search provides a powerful RESTful API that enables its integration into third-party portals, thus providing ‘Search as a Service’ capabilities, which are the main topic of this article.

Subfields: Molecular Biology

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In Molecular Biology

Citations in the corpus

The Pfam protein families database in 2019 (2018, methodology): “…established between an ORCID and Pfam entry, the re-searcher can link their Pfam contributions to their ORCID profile by claiming them via the EBI-Search system (21) (see the ‘Authorship’ page in the help section of the Pfam website https://pfam.xfam.org/help for more details on claiming entries).”
HMMER web server: 2018 update (2018, methodology): “EBI-Search (7) is a scalable text search engine based on Apache Lucene [https://lucene.”
The EMBL-EBI search and sequence analysis tools APIs in 2019 (2019, background): “The EMBL-EBI has devoted a lot of effort to develop two Web Service API-centred frameworks, Job Dispatcher (6) and EBI Search (7), for providing access to (i) sequence analysis tools and to (ii) a free text search and powerful cross-referencing engine, respectively.”
Using EMBL‐EBI Services via Web Interface and Programmatically via Web Services (2014, background): “To get the nucleotide sequence of human putative G–Protein Coupled Receptor 40 (GPR40), typeHomo sapiens putative GPR40 in the EBI Search (Park et al., 2017) search box available at https://www.ebi.ac.uk/ebisearch/.”