{"@context":{"@vocab":"https://cir.nii.ac.jp/schema/1.0/","rdfs":"http://www.w3.org/2000/01/rdf-schema#","dc":"http://purl.org/dc/elements/1.1/","dcterms":"http://purl.org/dc/terms/","foaf":"http://xmlns.com/foaf/0.1/","prism":"http://prismstandard.org/namespaces/basic/2.0/","cinii":"http://ci.nii.ac.jp/ns/1.0/","datacite":"https://schema.datacite.org/meta/kernel-4/","ndl":"http://ndl.go.jp/dcndl/terms/","jpcoar":"https://github.com/JPCOAR/schema/blob/master/2.0/"},"@id":"https://cir.nii.ac.jp/crid/1360580240155293696.json","@type":"Article","productIdentifier":[{"identifier":{"@type":"DOI","@value":"10.1093/nar/gkz943"}},{"identifier":{"@type":"URI","@value":"http://academic.oup.com/nar/advance-article-pdf/doi/10.1093/nar/gkz943/30335558/gkz943.pdf"}}],"dc:title":[{"@value":"The PATRIC Bioinformatics Resource Center: expanding data and analysis capabilities"}],"description":[{"type":"abstract","notation":[{"@value":"<jats:title>Abstract</jats:title>\n               <jats:p>The PathoSystems Resource Integration Center (PATRIC) is the bacterial Bioinformatics Resource Center funded by the National Institute of Allergy and Infectious Diseases (https://www.patricbrc.org). PATRIC supports bioinformatic analyses of all bacteria with a special emphasis on pathogens, offering a rich comparative analysis environment that provides users with access to over 250 000 uniformly annotated and publicly available genomes with curated metadata. PATRIC offers web-based visualization and comparative analysis tools, a private workspace in which users can analyze their own data in the context of the public collections, services that streamline complex bioinformatic workflows and command-line tools for bulk data analysis. Over the past several years, as genomic and other omics-related experiments have become more cost-effective and widespread, we have observed considerable growth in the usage of and demand for easy-to-use, publicly available bioinformatic tools and services. Here we report the recent updates to the PATRIC resource, including new web-based comparative analysis tools, eight new services and the release of a command-line interface to access, query and analyze data.</jats:p>"}]}],"creator":[{"@id":"https://cir.nii.ac.jp/crid/1380580240155293726","@type":"Researcher","foaf:name":[{"@value":"James J Davis"}],"jpcoar:affiliationName":[{"@value":"University of Chicago Consortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, USA"},{"@value":"Division of Data Science and Learning, Argonne National Laboratory, Argonne, IL 60439, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293698","@type":"Researcher","foaf:name":[{"@value":"Alice R Wattam"}],"jpcoar:affiliationName":[{"@value":"Division of Data Science and Learning, Argonne National Laboratory, Argonne, IL 60439, USA"},{"@value":"Biocomplexity Institute and Initiative, University of Virginia, Charlottesville, VA 22904, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293724","@type":"Researcher","foaf:name":[{"@value":"Ramy K Aziz"}],"jpcoar:affiliationName":[{"@value":"Department of Microbiology and Immunology, Faculty of Pharmacy, Cairo University, 11562 Cairo, Egypt"},{"@value":"Center for Genome and Microbiome Research, Cairo University, 11562 Cairo, Egypt"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293699","@type":"Researcher","foaf:name":[{"@value":"Thomas Brettin"}],"jpcoar:affiliationName":[{"@value":"University of Chicago Consortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, USA"},{"@value":"Computing Environment and Life Sciences, Argonne National Laboratory, Argonne, IL 60439, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293712","@type":"Researcher","foaf:name":[{"@value":"Ralph Butler"}],"jpcoar:affiliationName":[{"@value":"Division of Data Science and Learning, Argonne National Laboratory, Argonne, IL 60439, USA"},{"@value":"Middle Tennessee State University, Murfreesboro, TN 37132, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293716","@type":"Researcher","foaf:name":[{"@value":"Rory M Butler"}],"jpcoar:affiliationName":[{"@value":"Division of Data Science and Learning, Argonne National Laboratory, Argonne, IL 60439, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293703","@type":"Researcher","foaf:name":[{"@value":"Philippe Chlenski"}],"jpcoar:affiliationName":[{"@value":"Fellowship for Interpretation of Genomes, Burr Ridge, IL 60527, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293710","@type":"Researcher","foaf:name":[{"@value":"Neal Conrad"}],"jpcoar:affiliationName":[{"@value":"University of Chicago Consortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, USA"},{"@value":"Division of Data Science and Learning, Argonne National Laboratory, Argonne, IL 60439, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293714","@type":"Researcher","foaf:name":[{"@value":"Allan Dickerman"}],"jpcoar:affiliationName":[{"@value":"Biocomplexity Institute and Initiative, University of Virginia, Charlottesville, VA 22904, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293711","@type":"Researcher","foaf:name":[{"@value":"Emily M Dietrich"}],"jpcoar:affiliationName":[{"@value":"University of Chicago Consortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, USA"},{"@value":"Computing Environment and Life Sciences, Argonne National Laboratory, Argonne, IL 60439, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293697","@type":"Researcher","foaf:name":[{"@value":"Joseph L Gabbard"}],"jpcoar:affiliationName":[{"@value":"Virginia Tech, Blacksburg, VA 24061, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293696","@type":"Researcher","foaf:name":[{"@value":"Svetlana Gerdes"}],"jpcoar:affiliationName":[{"@value":"Fellowship for Interpretation of Genomes, Burr Ridge, IL 60527, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293728","@type":"Researcher","foaf:name":[{"@value":"Andrew Guard"}],"jpcoar:affiliationName":[{"@value":"University of Chicago Consortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293700","@type":"Researcher","foaf:name":[{"@value":"Ronald W Kenyon"}],"jpcoar:affiliationName":[{"@value":"Biocomplexity Institute and Initiative, University of Virginia, Charlottesville, VA 22904, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293702","@type":"Researcher","foaf:name":[{"@value":"Dustin Machi"}],"jpcoar:affiliationName":[{"@value":"Biocomplexity Institute and Initiative, University of Virginia, Charlottesville, VA 22904, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293729","@type":"Researcher","foaf:name":[{"@value":"Chunhong Mao"}],"jpcoar:affiliationName":[{"@value":"Biocomplexity Institute and Initiative, University of Virginia, Charlottesville, VA 22904, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293713","@type":"Researcher","foaf:name":[{"@value":"Dan Murphy-Olson"}],"jpcoar:affiliationName":[{"@value":"University of Chicago Consortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, USA"},{"@value":"Computing Environment and Life Sciences, Argonne National Laboratory, Argonne, IL 60439, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293704","@type":"Researcher","foaf:name":[{"@value":"Marcus Nguyen"}],"jpcoar:affiliationName":[{"@value":"University of Chicago Consortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, USA"},{"@value":"Division of Data Science and Learning, Argonne National Laboratory, Argonne, IL 60439, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293723","@type":"Researcher","foaf:name":[{"@value":"Eric K Nordberg"}],"jpcoar:affiliationName":[{"@value":"Transportation Institute, Virginia Tech University, Blacksburg, VA 24061, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293718","@type":"Researcher","foaf:name":[{"@value":"Gary J Olsen"}],"jpcoar:affiliationName":[{"@value":"Department of Microbiology, University of Illinois, Urbana, IL 61801, USA"},{"@value":"Carl R. Woese Institute for Genomic Biology, University of Illinois, Urbana, IL 61801, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293705","@type":"Researcher","foaf:name":[{"@value":"Robert D Olson"}],"jpcoar:affiliationName":[{"@value":"University of Chicago Consortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, USA"},{"@value":"Division of Data Science and Learning, Argonne National Laboratory, Argonne, IL 60439, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293706","@type":"Researcher","foaf:name":[{"@value":"Jamie C Overbeek"}],"jpcoar:affiliationName":[{"@value":"University of Chicago Consortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, USA"},{"@value":"Division of Data Science and Learning, Argonne National Laboratory, Argonne, IL 60439, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293707","@type":"Researcher","foaf:name":[{"@value":"Ross Overbeek"}],"jpcoar:affiliationName":[{"@value":"University of Chicago Consortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293721","@type":"Researcher","foaf:name":[{"@value":"Bruce Parrello"}],"jpcoar:affiliationName":[{"@value":"University of Chicago Consortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, USA"},{"@value":"Division of Data Science and Learning, Argonne National Laboratory, Argonne, IL 60439, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293719","@type":"Researcher","foaf:name":[{"@value":"Gordon D Pusch"}],"jpcoar:affiliationName":[{"@value":"Fellowship for Interpretation of Genomes, Burr Ridge, IL 60527, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293701","@type":"Researcher","foaf:name":[{"@value":"Maulik Shukla"}],"jpcoar:affiliationName":[{"@value":"University of Chicago Consortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, USA"},{"@value":"Division of Data Science and Learning, Argonne National Laboratory, Argonne, IL 60439, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293727","@type":"Researcher","foaf:name":[{"@value":"Chris Thomas"}],"jpcoar:affiliationName":[{"@value":"University of Chicago Consortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293725","@type":"Researcher","foaf:name":[{"@value":"Margo VanOeffelen"}],"jpcoar:affiliationName":[{"@value":"Fellowship for Interpretation of Genomes, Burr Ridge, IL 60527, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293715","@type":"Researcher","foaf:name":[{"@value":"Veronika Vonstein"}],"jpcoar:affiliationName":[{"@value":"Fellowship for Interpretation of Genomes, Burr Ridge, IL 60527, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293717","@type":"Researcher","foaf:name":[{"@value":"Andrew S Warren"}],"jpcoar:affiliationName":[{"@value":"Biocomplexity Institute and Initiative, University of Virginia, Charlottesville, VA 22904, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293722","@type":"Researcher","foaf:name":[{"@value":"Fangfang Xia"}],"jpcoar:affiliationName":[{"@value":"University of Chicago Consortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, USA"},{"@value":"Division of Data Science and Learning, Argonne National Laboratory, Argonne, IL 60439, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293708","@type":"Researcher","foaf:name":[{"@value":"Dawen Xie"}],"jpcoar:affiliationName":[{"@value":"Biocomplexity Institute and Initiative, University of Virginia, Charlottesville, VA 22904, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293720","@type":"Researcher","foaf:name":[{"@value":"Hyunseung Yoo"}],"jpcoar:affiliationName":[{"@value":"University of Chicago Consortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, USA"},{"@value":"Division of Data Science and Learning, Argonne National Laboratory, Argonne, IL 60439, USA"}]},{"@id":"https://cir.nii.ac.jp/crid/1380580240155293709","@type":"Researcher","foaf:name":[{"@value":"Rick Stevens"}],"jpcoar:affiliationName":[{"@value":"Computing Environment and Life Sciences, Argonne National Laboratory, Argonne, IL 60439, USA"},{"@value":"University of Chicago, Department of Computer Science, Chicago, IL 60637, USA"}]}],"publication":{"publicationIdentifier":[{"@type":"PISSN","@value":"03051048"},{"@type":"EISSN","@value":"13624962"}],"prism:publicationName":[{"@value":"Nucleic Acids Research"}],"dc:publisher":[{"@value":"Oxford University Press (OUP)"}],"prism:publicationDate":"2019-10-31","prism:volume":"48","prism:number":"D1","prism:startingPage":"D606"},"reviewed":"false","url":[{"@id":"http://academic.oup.com/nar/advance-article-pdf/doi/10.1093/nar/gkz943/30335558/gkz943.pdf"}],"createdAt":"2019-10-12","modifiedAt":"2019-10-31","relatedProduct":[{"@id":"https://cir.nii.ac.jp/crid/1360021389805779712","@type":"Article","resourceType":"学術雑誌論文(journal article)","relationType":["isReferencedBy"],"jpcoar:relatedTitle":[{"@value":"Draft genome sequences of\n            <i>Pantoea</i>\n            sp. strains QMID1-QMID4 isolated from the midgut of Japanese honey bee (\n            <i>Apis cerana japonica</i>\n            )"}]},{"@id":"https://cir.nii.ac.jp/crid/1360861704773131008","@type":"Article","resourceType":"学術雑誌論文(journal article)","relationType":["isReferencedBy"],"jpcoar:relatedTitle":[{"@value":"Genomic Epidemiological Analysis of Antimicrobial-Resistant Bacteria with Nanopore 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