The EMBL-EBI search and sequence analysis tools APIs in 2019.

Fábio Madeira,Simon C Potter,Rodrigo Lopez,Robert D Finn,Tamer Gur,Young Mi Park,Adrian R N Tivey,Prasad Basutkar,Nandana Madhusoodanan,Joon Lee,Nicola Buso

doi:10.1093/nar/gkz268

Fábio Madeira, Simon C Potter + Show 9 more

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https://doi.org/10.1093/nar/gkz268

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Abstract

The EMBL-EBI provides free access to popular bioinformatics sequence analysis applications as well as to a full-featured text search engine with powerful cross-referencing and data retrieval capabilities. Access to these services is provided via user-friendly web interfaces and via established RESTful and SOAP Web Services APIs (https://www.ebi.ac.uk/seqdb/confluence/display/JDSAT/EMBL-EBI+Web+Services+APIs+-+Data+Retrieval). Both systems have been developed with the same core principles that allow them to integrate an ever-increasing volume of biological data, making them an integral part of many popular data resources provided at the EMBL-EBI. Here, we describe the latest improvements made to the frameworks which enhance the interconnectivity between public EMBL-EBI resources and ultimately enhance biological data discoverability, accessibility, interoperability and reusability.

Highlights

With the advent of many technological developments, the volume and types of data generated in the life sciences have greatly expanded over the last years
The European Molecular Biology Laboratory (EMBL)-EBI has devoted a lot of effort to develop two Web Service Application Programming Interfaces (APIs)-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
Tools running under it comprise core bioinformatics analytical tools and nucleotide and protein sequence databases hosted at EMBL-EBI via three fundamental interfaces: web browser, RESTful and SOAP Web Services

Summary

Introduction

With the advent of many technological developments, the volume and types of data generated in the life sciences have greatly expanded over the last years. 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.

Results

Conclusion