The EBI Search engine: Providing search and retrieval functionality for biological data from EMBL-EBI

Silvano Squizzato; Young Mi Park; Nicola Buso; Tamer Gur; Andrew Cowley; Weizhong Li; Mahmut Uludag; Sangya Pundir; Jennifer A. Cham; Hamish McWilliam; Rodrigo Lopez

doi:10.1093/nar/gkv316

The EBI Search engine: Providing search and retrieval functionality for biological data from EMBL-EBI

Silvano Squizzato, Young Mi Park, Nicola Buso, Tamer Gur, Andrew Cowley, Weizhong Li, Mahmut Uludag, Sangya Pundir, Jennifer A. Cham, Hamish McWilliam, Rodrigo Lopez^*

^*Corresponding author for this work

Computational Bioscience Research Center

Research output: Contribution to journal › Article › peer-review

27 Scopus citations

Abstract

The European Bioinformatics Institute (EMBLEBI-https://www.ebi.ac.uk) provides free and unrestricted access to data across all major areas of biology and biomedicine. Searching and extracting knowledge across these domains requires a fast and scalable solution that addresses the requirements of domain experts as well as casual users. We present the EBI Search engine, referred to here as 'EBI Search', an easy-to-use fast text search and indexing system with powerful data navigation and retrieval capabilities. API integration provides access to analytical tools, allowing users to further investigate the results of their search. 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 including sequences, genes, gene products, proteins, protein domains, protein families, enzymes andmacromolecular structures, together with relevant life science literature.

Original language	English (US)
Pages (from-to)	W585-W588
Journal	Nucleic acids research
Volume	43
Issue number	W1
DOIs	https://doi.org/10.1093/nar/gkv316
State	Published - 2015

Bibliographical note

Funding Information:
BBSRC Award 'The RNAcentral database of non-coding RNAs'; BB/J019232/1; European Molecular Biology Laboratory (EMBL). Funding for open access charge: European Molecular Biology Laboratory (EMBL).

Publisher Copyright:
© The Author(s) 2015.

ASJC Scopus subject areas

Genetics

Access to Document

10.1093/nar/gkv316

Cite this

@article{408cc343dde24be790a05f02a3473c01,

title = "The EBI Search engine: Providing search and retrieval functionality for biological data from EMBL-EBI",

abstract = "The European Bioinformatics Institute (EMBLEBI-https://www.ebi.ac.uk) provides free and unrestricted access to data across all major areas of biology and biomedicine. Searching and extracting knowledge across these domains requires a fast and scalable solution that addresses the requirements of domain experts as well as casual users. We present the EBI Search engine, referred to here as 'EBI Search', an easy-to-use fast text search and indexing system with powerful data navigation and retrieval capabilities. API integration provides access to analytical tools, allowing users to further investigate the results of their search. 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 including sequences, genes, gene products, proteins, protein domains, protein families, enzymes andmacromolecular structures, together with relevant life science literature.",

author = "Silvano Squizzato and Park, {Young Mi} and Nicola Buso and Tamer Gur and Andrew Cowley and Weizhong Li and Mahmut Uludag and Sangya Pundir and Cham, {Jennifer A.} and Hamish McWilliam and Rodrigo Lopez",

note = "Funding Information: BBSRC Award 'The RNAcentral database of non-coding RNAs'; BB/J019232/1; European Molecular Biology Laboratory (EMBL). Funding for open access charge: European Molecular Biology Laboratory (EMBL). Publisher Copyright: {\textcopyright} The Author(s) 2015.",

year = "2015",

doi = "10.1093/nar/gkv316",

language = "English (US)",

volume = "43",

pages = "W585--W588",

journal = "Nucleic acids research.",

issn = "0305-1048",

publisher = "OXFORD UNIV PRESS",

number = "W1",

}

TY - JOUR

T1 - The EBI Search engine

T2 - Providing search and retrieval functionality for biological data from EMBL-EBI

AU - Squizzato, Silvano

AU - Park, Young Mi

AU - Buso, Nicola

AU - Gur, Tamer

AU - Cowley, Andrew

AU - Li, Weizhong

AU - Uludag, Mahmut

AU - Pundir, Sangya

AU - Cham, Jennifer A.

AU - McWilliam, Hamish

AU - Lopez, Rodrigo

N1 - Funding Information: BBSRC Award 'The RNAcentral database of non-coding RNAs'; BB/J019232/1; European Molecular Biology Laboratory (EMBL). Funding for open access charge: European Molecular Biology Laboratory (EMBL). Publisher Copyright: © The Author(s) 2015.

PY - 2015

Y1 - 2015

N2 - The European Bioinformatics Institute (EMBLEBI-https://www.ebi.ac.uk) provides free and unrestricted access to data across all major areas of biology and biomedicine. Searching and extracting knowledge across these domains requires a fast and scalable solution that addresses the requirements of domain experts as well as casual users. We present the EBI Search engine, referred to here as 'EBI Search', an easy-to-use fast text search and indexing system with powerful data navigation and retrieval capabilities. API integration provides access to analytical tools, allowing users to further investigate the results of their search. 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 including sequences, genes, gene products, proteins, protein domains, protein families, enzymes andmacromolecular structures, together with relevant life science literature.

AB - The European Bioinformatics Institute (EMBLEBI-https://www.ebi.ac.uk) provides free and unrestricted access to data across all major areas of biology and biomedicine. Searching and extracting knowledge across these domains requires a fast and scalable solution that addresses the requirements of domain experts as well as casual users. We present the EBI Search engine, referred to here as 'EBI Search', an easy-to-use fast text search and indexing system with powerful data navigation and retrieval capabilities. API integration provides access to analytical tools, allowing users to further investigate the results of their search. 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 including sequences, genes, gene products, proteins, protein domains, protein families, enzymes andmacromolecular structures, together with relevant life science literature.

UR - http://www.scopus.com/inward/record.url?scp=84979852259&partnerID=8YFLogxK

U2 - 10.1093/nar/gkv316

DO - 10.1093/nar/gkv316

M3 - Article

C2 - 25855807

AN - SCOPUS:84979852259

SN - 0305-1048

VL - 43

SP - W585-W588

JO - Nucleic acids research.

JF - Nucleic acids research.

IS - W1

ER -

The EBI Search engine: Providing search and retrieval functionality for biological data from EMBL-EBI

Abstract

Bibliographical note

ASJC Scopus subject areas

Access to Document

Other files and links

Fingerprint

Cite this