A new bioinformatics analysis tools framework at EMBL-EBI

Abstract

The EMBL-EBI provides access to various mainstream sequence analysis applications. These include sequence similarity search services such as BLAST, FASTA, InterProScan and multiple sequence alignment tools such as ClustalW, T-Coffee and MUSCLE. Through the sequence similarity search services, the users can search mainstream sequence databases such as EMBL-Bank and UniProt, and more than 2000 completed genomes and proteomes. We present here a new framework aimed at both novice as well as expert users that exposes novel methods of obtaining annotations and visualizing sequence analysis results through one uniform and consistent interface. These services are available over the web and via Web Services interfaces for users who require systematic access or want to interface with customized pipe-lines and workflows using common programming languages. The framework features novel result visualizations and integration of domain and functional predictions for protein database searches. It is available at http://www.ebi.ac.uk/Tools/sss for sequence similarity searches and at http://www.ebi.ac.uk/Tools/msa for multiple sequence alignments.

Keywords

UniProtWorkflowInterface (matter)Sequence alignmentSequence databaseMultiple sequence alignmentSmith–Waterman algorithmInformation retrievalComputer scienceSimilarity (geometry)Application programming interfaceSequence (biology)User interfaceWeb serviceSequence analysisBioinformaticsBiologyWorld Wide WebComputational biologyDatabaseProgramming languagePeptide sequenceGeneticsArtificial intelligence

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Publication Info

Year: 2010
Type: article
Volume: 38
Issue: Web Server
Pages: W695-W699
Citations: 1870
Access: Closed

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APA Style

                            
                                
                                    M. Goujon, 
                                
                                    Hamish McWilliam, 
                                
                                    Weizhong Li
                                
                                et al.
                            
                            (2010). 
                            A new bioinformatics analysis tools framework at EMBL-EBI. 
                            Nucleic Acids Research
                            , 38
                            (Web Server)
                            , W695-W699.
                            https://doi.org/10.1093/nar/gkq313
                        

Identifiers

DOI: 10.1093/nar/gkq313