{"doi":"10.1093/nar/gkx967","title":"EBI Metagenomics in 2017: enriching the analysis of microbial communities, from sequence reads to assemblies","abstract":"EBI metagenomics (http://www.ebi.ac.uk/metagenomics) provides a free to use platform for the analysis and archiving of sequence data derived from the microbial populations found in a particular environment. Over the past two years, EBI metagenomics has increased the number of datasets analysed 10-fold. In addition to increased throughput, the underlying analysis pipeline has been overhauled to include both new or updated tools and reference databases. Of particular note is a new workflow for taxonomic assignments that has been extended to include assignments based on both the large and small subunit RNA marker genes and to encompass all cellular micro-organisms. We also describe the addition of metagenomic assembly as a new analysis service. Our pilot studies have produced over 2400 assemblies from datasets in the public domain. From these assemblies, we have produced a searchable, non-redundant protein database of over 50 million sequences. To provide improved access to the data stored within the resource, we have developed a programmatic interface that provides access to the analysis results and associated sample metadata. Finally, we have integrated the results of a series of statistical analyses that provide estimations of diversity and sample comparisons.","journal":"Nucleic Acids Research","year":2017,"id":3162,"datarank":8.871442805713212,"base_score":5.4510384535657,"endowment":5.4510384535657,"self_citation_contribution":0.8176557680348552,"citation_network_contribution":8.053787037678356,"self_endowment_contribution":0.8176557680348552,"citer_contribution":8.053787037678356,"corpus_percentile":76.72904800650936,"corpus_rank":287,"citation_count":236,"citer_count":183,"citers_with_citation_signal":170,"citers_with_endowment":170,"datacite_reuse_total":0,"is_dataset":true,"is_dataset_confidence":0.9235,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2017-10-23","algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":29847,"name":"Maxim Scheremetjew","orcid":"0000-0002-7458-3072","position":1,"is_corresponding":false},{"id":29836,"name":"Hubert Denise","orcid":"0000-0001-9862-5890","position":2,"is_corresponding":false},{"id":34531,"name":"Simon Potter","orcid":"0000-0003-4208-4102","position":3,"is_corresponding":false},{"id":34532,"name":"Aleksandra Tarkowska","orcid":"0000-0002-3392-3691","position":4,"is_corresponding":false},{"id":34533,"name":"Matloob Qureshi","orcid":"0000-0003-2208-4236","position":5,"is_corresponding":false},{"id":34534,"name":"Gustavo A Salazar","orcid":"0000-0001-9208-4966","position":6,"is_corresponding":false},{"id":29845,"name":"Sebastien Pesseat","orcid":"0000-0003-3245-7921","position":7,"is_corresponding":false},{"id":34535,"name":"Miguel A Boland","orcid":"0000-0002-2703-8936","position":8,"is_corresponding":false},{"id":34537,"name":"Petra ten Hoopen","orcid":"0000-0003-4242-4015","position":10,"is_corresponding":false},{"id":34538,"name":"Blaise Alako","orcid":"0000-0001-6859-4421","position":11,"is_corresponding":false},{"id":18876,"name":"Clara Amid","orcid":"0000-0001-6534-7425","position":12,"is_corresponding":false},{"id":34539,"name":"Darren J. Wilkinson","orcid":"0000-0003-0736-802X","position":13,"is_corresponding":false},{"id":34540,"name":"Thomas P. Curtis","orcid":"0000-0002-9009-1748","position":14,"is_corresponding":false},{"id":11687,"name":"Guy Cochrane","orcid":"0000-0001-7954-7057","position":15,"is_corresponding":false},{"id":36329,"name":"Juan S. Escobar","orcid":"0000-0001-7304-917X","position":16,"is_corresponding":false},{"id":29842,"name":"Alex Mitchell","orcid":"0000-0001-8655-7966","position":17,"is_corresponding":false},{"id":34541,"name":"Fiona Hunter","orcid":"0000-0001-7160-1880","position":18,"is_corresponding":false}],"reference_count":44,"raw_metadata":null,"created_at":"2026-03-01T18:20:47.508186Z","pmid":null,"pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}