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

  • ️Tue Jan 01 2019

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

Fábio Madeira et al. Nucleic Acids Res. 2019.

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.

© The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research.

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Figures

Figure 1.
Figure 1.

New visualization of cross-reference links in EBI Search.

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References

    1. Tarkowska A., Carvalho-Silva D., Cook C.E., Turner E., Finn R.D., Yates A.D.. Eleven quick tips to build a usable REST API for life sciences. PLoS Comput. Biol. 2018; 14:e1006542. - PMC - PubMed
    1. Camacho C., Coulouris G., Avagyan V., Ma N., Papadopoulos J., Bealer K., Madden T.L.. BLAST+: architecture and applications. BMC Bioinformatics. 2009; 10:421. - PMC - PubMed
    1. Pearson W.R., Lipman D.J.. Improved tools for biological sequence comparison. Proc. Natl. Acad. Sci. U.S.A. 1988; 85:2444–2448. - PMC - PubMed
    1. Potter S.C., Luciani A., Eddy S.R., Park Y., Lopez R., Finn R.D.. HMMER web server: 2018 update. Nucleic Acids Res. 2018; 46:W200–W204. - PMC - PubMed
    1. Jones P., Binns D., Chang H.Y., Fraser M., Li W., McAnulla C., McWilliam H., Maslen J., Mitchell A., Nuka G. et al. .. InterProScan 5: Genome-scale protein function classification. Bioinformatics. 2014; 30:1236–1240. - PMC - PubMed

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