Ana Cerdeño-Tárraga

The European Nucleotide Archive in 2018

Peter W. Harrison, Blaise Alako, Clara Amid, Ana Cerdeño-Tárraga et autres

The European Nucleotide Archive (ENA; https://www.ebi.ac.uk/ena), provided from EMBL-EBI, has for more than three decades been responsible for archiving the world's public sequencing data and presenting this important resource to the scientific community to support and accelerate the global research effort. Here, …

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The European Nucleotide Archive in 2017

Nicole Silvester, Blaise Alako, Clara Amid, Ana Cerdeño-Tárraga et autres

For 35 years the European Nucleotide Archive (ENA; https://www.ebi.ac.uk/ena) has been responsible for making the world's public sequencing data available to the scientific community. Advances in sequencing technology have driven exponential growth in the volume of data to be processed and stored …

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Annotation of plasmid genes

Christopher M. Thomas, Nicholas R. Thomson, Ana Cerdeño-Tárraga, Celeste J. Brown et autres

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European Nucleotide Archive in 2016

Ana Luisa Toribio, Blaise Alako, Clara Amid, Ana Cerdeño-Tárraga et autres

The European Nucleotide Archive (ENA; http://www.ebi.ac.uk/ena) offers a rich platform for data sharing, publishing and archiving and a globally comprehensive data set for onward use by the scientific community. With a broad scope spanning raw sequencing reads, genome assemblies and functional annotation, …

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Sustainable biocuration of functional annotation at the European Nucleotide Archive

Richard Gibson, Clara Amid, Ana Cerdeño-Tárraga, Petra ten Hoopen et autres

The European Nucleotide Archive (ENA; http://www.ebi.ac.uk/ena) hosts, maintains and presents nucleotide sequence data along with associated sample and experimental metadata. Functional annotation has always been hand-in-hand with the storage of traditional sequence records, providing an interpretation of genetic features together with the …

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Value, but high costs in post-deposition data curation

Petra ten Hoopen, Clara Amid, Pier Luigi Buttigieg, Evangelos Pafilis et autres

Discoverability of sequence data in primary data archives is proportional to the richness of contextual information associated with the data. Here, we describe an exercise in the improvement of contextual information surrounding sample records associated with metagenomics sequence reads available in the …

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Biocuration of functional annotation at the European nucleotide archive

Richard Gibson, Blaise Alako, Clara Amid, Ana Cerdeño-Tárraga et autres

The European Nucleotide Archive (ENA; http://www.ebi.ac.uk/ena) is a repository for the submission, maintenance and presentation of nucleotide sequence data and related sample and experimental information. In this article we report on ENA in 2015 regarding general activity, notable published data sets and …

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Genetic characterization of three qnrS1-harbouring multidrug-resistance plasmids and qnrS1-containing transposons circulating in Ho Chi Minh City, Vietnam

Vien Le, Nguyen Thi Khanh Nhu, Ana Cerdeño-Tárraga, James I. Campbell et autres

Plasmid-mediated quinolone resistance (PMQR) refers to a family of closely related genes that confer decreased susceptibility to fluoroquinolones. PMQR genes are generally associated with integrons and/or plasmids that carry additional antimicrobial resistance genes active against a range of antimicrobials. In Ho Chi …

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Content discovery and retrieval services at the European Nucleotide Archive

Nicole Silvester, Blaise Alako, Clara Amid, Ana Cerdeño-Tárraga et autres

The European Nucleotide Archive (ENA; http://www.ebi.ac.uk/ena) is Europe's primary resource for nucleotide sequence information. With the growing volume and diversity of public sequencing data comes the need for increased sophistication in data organisation, presentation and search services so as to maximise its …

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Complete Genome Sequences of Two Citrobacter rodentium Bacteriophages, CR8 and CR44b

Ana Luisa Toribio, Derek Pickard, Ana Cerdeño-Tárraga, Nicola K. Petty et autres

The complete genomes of two virulent phages infecting Citrobacter rodentium are reported here for the first time. Both bacteriophages were isolated from local sewage treatment plant effluents. Genome analyses revealed a close relationship between both phages and allowed their classification as members …

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Bacterial Human Pathogen Genomes: an Overview

Stephen Bentley, Mohammed Sebaihia, Nicholas R. Thomson, Matthew T. G. Holden et autres

This chapter provides an overview of what has been learned from analysis of bacterial human pathogen genomes. Bacterial human pathogens such as alphaproteobacteria, spirochetes, actinobacteria, firmicutes and gammaproteobacteria are studied. Haemophilus influenzae is a common commensal of the human respiratory tract. Three …

Assembly information services in the European Nucleotide Archive

Nima Pakseresht, Blaise Alako, Clara Amid, Ana Cerdeño-Tárraga et autres

The European Nucleotide Archive (ENA; http://www.ebi.ac.uk/ena) is a repository for the world public domain nucleotide sequence data output. ENA content covers a spectrum of data types including raw reads, assembly data and functional annotation. ENA has faced a dramatic growth in genome …

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