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Public web-based services from the European Bioinformatics Institute
2004
Nucleic Acids Research
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The mission of the European Bioinformatics Institute (EBI), an outstation of the European Molecular Biology Laboratory (EMBL) in Heidelberg, is to ensure that the growing body of information from molecular ...
To fulfil this mission, the EBI provides a wide variety of free, publicly available bioinformatics services. ...
ACKNOWLEDGEMENTS We would like to thank our parent organization, the European Molecular Biology Laboratory; the Commission of the European Union, which provides funding through the TEMBLOR grant (QLRI- ...
doi:10.1093/nar/gkh405
pmid:15215339
pmcid:PMC441543
fatcat:3q4of4kokrff7pyrexa6wxhx3u
Web Services at the European Bioinformatics Institute
2007
Nucleic Acids Research
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Sequence analysis The European Bioinformatics Institute also provides Web Services for sequence similarity tools (WSFasta, WSWUBlast, WSNCBIBlast, WSMPsrch, WSScanPS, WSScanWise); protein analysis (WSInterProScan ...
, or retrieve data from the ArrayExpress public repository at the EBI. ...
doi:10.1093/nar/gkm291
pmid:17576686
pmcid:PMC1933145
fatcat:tc6mwelg3rbnpgqjfqr26v3y5i
Information resources for the bioinformatician
2000
Briefings in Bioinformatics
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A World-Wide Web site called The Bioinformatics Resource has been created containing a comprehensive set of information resources of use to the bioinformatician. ...
The collaborative computing project in biosequence and structure analysis (CCP11) was established to foster bioinformatics in the broad community and the UK research community in particular. ...
Acknowledgement The author gratefully acknowledges the support of the MRC. ...
doi:10.1093/bib/1.3.229
pmid:11465034
fatcat:acr5ozdylbhnjd3ccfuaso3xfu
Jalview: Visualization and Analysis of Molecular Sequences, Alignments, and Structures
2005
BMC Bioinformatics
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Jalview is also able to access web based alignment, secondary structure prediction and sequence database services provided by the the European Bioinformatics Institute (EBI), and the University of Dundee ...
exchange, web service discovery and interaction. ...
doi:10.1186/1471-2105-6-s3-p28
fatcat:nlbbus7r6rghbnuo43suiktosy
Exploring reference data through existing computing services for the bioinformatics community
2021
Zenodo
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EOSC-Pillar's work package 6 focuses on scientific demonstrators that show the added value of EOSC services Learn more about Use case 6.6: https://www.eosc-pillar.eu/use-cases/exploring-reference-data-through-existing-computing-services-bioinformatics-community ...
EOSC-Pillar is a European Commission Horizon 2020 funded research and innovation project. EOSC aims to provide researchers with access to data/results that are currently fragmented. ...
different Galaxy deployments An open, web-based platform for accessible, reproducible,
» Facilitating the deployment of Galaxy ...
doi:10.5281/zenodo.5764786
fatcat:z6jv2jaxpzbgxlyenhk6umtsf4
Guest Editorial: Special Section on Grid, Web Services, Software Agents, and Ontology Applications for Life Sciences
2007
IEEE Transactions on Nanobioscience
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Armano et al. describe an agent-based system able to retrieve scientific publications from the web throughout a text categorization process. ...
Others are concerned with advanced techniques and methodologies, like Web services and agent-based systems. ...
doi:10.1109/tnb.2007.897434
fatcat:kihmne4uazcivazs5vgh36c6py
KBWS: an EMBOSS associated package for accessing bioinformatics web services
2011
Source Code for Biology and Medicine
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The availability of bioinformatics web-based services is rapidly proliferating, for their interoperability and ease of use. ...
In order to deploy the advantages of web services with locally installed tools, here we describe a collection of proxy client tools for 42 major bioinformatics web services in the form of European Molecular ...
This research was supported by the Grant-in-Aid for Young Scientists No.222681029 from the Japan Society for the Promotion of Science (JSPS), and by funds from the Yamagata Prefectural Government and Tsuruoka ...
doi:10.1186/1751-0473-6-8
pmid:21529350
pmcid:PMC3101651
fatcat:fwomop332zd2xnojjyntnu2v5a
Web services at the European Bioinformatics Institute-2009
2009
Nucleic Acids Research
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The European Bioinformatics Institute (EMBL-EBI) has been providing access to mainstream databases and tools in bioinformatics since 1997. ...
From the user's point of view, these Web Services provide the same functionality as the browser-based forms. ...
ACKNOWLEDGEMENTS The authors wish to acknowledge all software developers, database administrators, data curators and users at the EMBL-EBI and elsewhere, who have provided extremely valuable feedback and ...
doi:10.1093/nar/gkp302
pmid:19435877
pmcid:PMC2703973
fatcat:5kah2noaqjhjbd477rxenbrxvu
SOAP-based services provided by the European Bioinformatics Institute
2005
Nucleic Acids Research
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THE TECHNOLOGIES The European Bioinformatics Institute (EBI) has tried and tested standards such as CORBA (http://www.corba.org) and Web Services. ...
at: EMBL Outstation, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 ISD, UK. ...
doi:10.1093/nar/gki491
pmid:15980463
pmcid:PMC1160251
fatcat:2odbedc7xzfnnldtxk7spoqxry
Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support
2014
Nucleic Acids Research
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The SIB Swiss Institute of Bioinformatics (www.isbsib.ch) was created in 1998 as an institution to foster excellence in bioinformatics. ...
This article provides an overview of the scientific and training resources SIB has consistently been offering to the life science community for more than 15 years. ...
INTRODUCTION The SIB Swiss Institute of Bioinformatics was formally founded in 1998 but prior bioinformatics services initiated in the 1980s, such as Swiss-Prot (1) (now UniProtKB/Swiss-Prot), ExPASy ( ...
doi:10.1093/nar/gku380
pmid:24792157
pmcid:PMC4086091
fatcat:ps6txa3xijhpxbpl2radc6dvdi
One Health EJP Annual Scientific Meeting Satellite Workshop 2021 Abstract Book
[article]
2021
Zenodo
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Seven out of the ten innovative digital solutions introduced in this abstract book were presented at the virtual event that took place on 7th June 2021. ...
book for the One Health EJP Annual Scientific Meeting (ASM) Satellite Workshop 2021 Online Software Fair. ...
in the data curation process. ...
doi:10.5281/zenodo.4923179
fatcat:qepr2hnd4baxznbrl2mkqfhw24
The EMBL Nucleotide Sequence Database
2002
Nucleic Acids Research
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EMBL-Bank is located and maintained at the European Bioinformatics Institute (EBI) near Cambridge, UK. ...
Webin is the preferred web-based submission system for individual submitters, whilst automatic procedures allow incorporation of sequence data from large-scale genome sequencing centres and from the European ...
INTRODUCTION The European Bioinformatics Institute (EBI) is an Outstation of the European Molecular Biology Laboratory (EMBL) in Heidelberg, Germany. ...
doi:10.1093/nar/30.1.21
pmid:11752244
pmcid:PMC99098
fatcat:d4m5pk36dvcvxivcuvskxwn3oe
Rapport d'activités IFB 2019-2020
[article]
2021
Zenodo
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As the national infrastructure of bioinformatics and the French node of the European infrastructure ELIXIR, the Institut Français de Bioinformatique (IFB, alias ELIXIR-FR) is at the crossroads of these ...
the National Research Agency, and a strong commitment of our supporting institutions to open permanent positions. ...
>> Detailed report of the survey ...
doi:10.5281/zenodo.5324333
fatcat:py5xp6q7ungkdevdqx25zxfwmq
The BioMart community portal: an innovative alternative to large, centralized data repositories
2015
Nucleic Acids Research
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A new addition to our toolbox, the enrichment analysis tool is now accessible through graphical and web service interface. The BioMart community portal averages over one million requests per day. ...
Building on this level of service and the wealth of information that has become available, the BioMart Community Portal has introduced a new, more scalable and cheaper alternative to the large data stores ...
WEB SERVICE The BioMart Community Portal handles queries from several interfaces such as: r PERL API r Java API r Web interfaces r URL based access r RESTful web service r SPARQL For more detailed description ...
doi:10.1093/nar/gkv350
pmid:25897122
pmcid:PMC4489294
fatcat:vg2axbtz5rauti5yac74id57k4
A snapshot of 3649 Web-based services published between 1994 and 2017 shows a decrease in availability after 2 years
2017
Briefings in Bioinformatics
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Three major bioinformatics centres, the US National Centre for Biotechnology Information (NCBI, https://www.ncbi.nlm.nih.gov/), the European Bioinformatics Institute (EMBL-EBI, http://www.ebi.ac.uk/) and ...
Both Nucleic Acids Research and Bioinformatics request a 2-year maintenance of the published services from the authors after publication (Table 1) . ...
doi:10.1093/bib/bbx159
pmid:29228189
fatcat:7jjht7qpcfbwdhotbrqcncqqqy
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