{"id":77215,"date":"2025-11-19T11:35:25","date_gmt":"2025-11-19T10:35:25","guid":{"rendered":"https:\/\/www.embl.org\/news\/?p=77215"},"modified":"2025-11-19T11:35:28","modified_gmt":"2025-11-19T10:35:28","slug":"case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland","status":"publish","type":"post","link":"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/","title":{"rendered":"Case study: EMBL-EBI tool enables genomic outbreak surveillance for NHS Scotland"},"content":{"rendered":"\n<article class=\"vf-card vf-card--brand vf-card--bordered vf-u-margin__bottom--800\" default>\n  <div class=\"vf-card__content | vf-stack vf-stack--400\">\n      <h3 class=\"vf-card__heading\">\n      Summary    <\/h3>\n                <p class=\"vf-card__text\"><ul>\r\n \t<li style=\"font-weight: 400;\" aria-level=\"1\"><span style=\"font-weight: 400;\">PopPIPE, a genomic analysis tool developed at EMBL-EBI, is helping NHS Scotland improve outbreak surveillance.\u00a0<\/span><\/li>\r\n \t<li style=\"font-weight: 400;\" aria-level=\"1\"><span style=\"font-weight: 400;\">In collaboration with NHS Lothian and the University of St Andrews, this new tool revealed hidden transmission clusters in infection outbreaks and is now being piloted in national workflows for <\/span><i><span style=\"font-weight: 400;\">Enterococcus<\/span><\/i><span style=\"font-weight: 400;\"> and gonorrhoea monitoring.<\/span><\/li>\r\n \t<li style=\"font-weight: 400;\" aria-level=\"1\"><span style=\"font-weight: 400;\">By making advanced genomic epidemiology more accessible, PopPIPE helps public health teams monitor the spread of infection and implement intervention strategies.<\/span><\/li>\r\n<\/ul><\/p>\n      <\/div>\n<\/article>\n\n\n\n\n<p>Bacterial infections can spread quickly, especially in hospital settings or crowded communities, where vulnerable people are treated in close proximity and bacteria move between them. Antimicrobial-resistant infections are a growing threat, with <a href=\"https:\/\/www.sciencedirect.com\/science\/article\/pii\/S0140673624018671?via%3Dihub\">over one million deaths attributable to AMR<\/a> annually. Outbreaks caused by resistant strains can be difficult to control and treat.<\/p>\n\n\n\n<p>Other bacterial infections, such as gonorrhoea, often cause no symptoms, making them even harder to detect and track. Cases of gonorrhoea are rising rapidly in the UK, and a new vaccine rollout across the UK aims to curb infections and slow its spread. Alongside the vaccine efforts, genomic surveillance \u2013 studying the DNA of these bacteria \u2013 can help track how the infection is spreading, and where interventions can stop outbreaks before they escalate.<\/p>\n\n\n\n<p>One of the major challenges is that analysing bacterial genomes to spot outbreaks and transmission can be technically complex and time-consuming. Public health teams need tools that simplify the process, work across a range of bacteria, and produce results that are easy to interpret and act on.<\/p>\n\n\n\n<h2 class=\"wp-block-heading\">Introducing PopPIPE<\/h2>\n\n\n\n<p>To meet this challenge, researchers at EMBL-EBI developed PopPIPE \u2013 the Population analysis PIPEline. PopPIPE is a user-friendly tool that clinicians and scientists can use to identify related bacterial samples, detect transmission events, and visualise the results.<\/p>\n\n\n\n<p>\u201cWe designed our pipeline to be both rapid and reproducible, to create interactive visualisations, and so that it can easily be reconfigured and re-run on new datasets,\u201d said <a href=\"https:\/\/www.ebi.ac.uk\/research\/lees\/\">John Lees, Group Leader at EMBL-EBI<\/a>. \u201cPerhaps most importantly, PopPIPE helps to make the many complex tools needed to run genomic epidemiology analyses accessible and efficient, opening up advanced analysis to users who may not have specialist bioinformatics expertise.\u201d<\/p>\n\n\n\n<h2 class=\"wp-block-heading\">Collaboration with the NHS in Scotland<\/h2>\n\n\n\n<p>In 2022, PopPIPE was used to investigate antibiotic-resistant bacterial infections across six hospital wards as part of a research collaboration between NHS Lothian and the University of St Andrews. Using this tool revealed clear transmission clusters and helped the team confirm suspected links between patients, as well as uncover new ones that had not been detected before.&nbsp;<\/p>\n\n\n\n<p>\u201cPopPIPE significantly simplifies genomic epidemiology. It speeds up our outbreak response and improves accuracy, helping us manage infections more effectively,\u201d said Martin McHugh, Principal Clinical Scientist at NHS Lothian. \u201cIt gives us a clearer picture of how infections are spreading and where we need to focus control measures.\u201d<\/p>\n\n\n\n<p>Encouraged by these results, the tool is now being evaluated for inclusion in the routine analysis pipeline managed by the Public Health Microbiology Bioinformatics team in Public Health Scotland. Initially, this will be piloted for the <em>Enterococcus<\/em> service, with gonorrhoea also earmarked for future evaluation.&nbsp;<\/p>\n\n\n\n<p>Gonorrhoea is a sexually transmitted infection (STI), which often spreads without symptoms, and presents different challenges for outbreak monitoring. PopPIPE is helping reveal how gonorrhoea strains move between cities and populations, providing a clearer picture of transmission dynamics and supporting better public health interventions. Other bacterial infections within the Public Health Microbiology portfolio will be evaluated in the future.<\/p>\n\n\n\n<h2 class=\"wp-block-heading\">Impact and what\u2019s next&nbsp;<\/h2>\n\n\n\n<p>PopPIPE is designed to make advanced genomic analysis more accessible to a broad range of users. At Public Health Scotland, it is being integrated into national reference laboratory workflows and evaluated for use across multiple pathogens.<\/p>\n\n\n\n<p>This collaboration demonstrates how bioinformatics tools can become part of routine public health practice when delivered through easy-to-use workflows. As sequencing becomes a routine component of infectious disease surveillance, bioinformatics tools such as this will play an increasingly important role in national and international health responses.&nbsp;<\/p>\n\n\n\n\n","protected":false},"excerpt":{"rendered":"<p>A new genomic analysis tool developed at EMBL-EBI, is helping NHS Scotland tackle antimicrobial resistance and improve outbreak response.<\/p>\n","protected":false},"author":77,"featured_media":77217,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"_acf_changed":false,"footnotes":""},"categories":[11060,17591],"tags":[12730,28,17689,36,42,13084,11940,581,539],"embl_taxonomy":[2906,18979,11964],"class_list":["post-77215","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-research-highlights","category-science-technology","tag-antimicrobial-resistance","tag-bioinformatics","tag-case-study","tag-embl-ebi","tag-genomics","tag-lees","tag-microbial-systems","tag-microbiology","tag-research-highlight","embl_taxonomy-embl-ebi","embl_taxonomy-john-lees","embl_taxonomy-lees-group"],"acf":{"vfwp-news_embl_taxonomy":[2906,11964,18979],"featured":true,"show_featured_image":false,"field_target_display":"both","field_article_language":{"value":"english","label":"English"},"article_intro":"<p>A new genomic analysis tool developed at EMBL-EBI, is helping NHS Scotland tackle antimicrobial resistance and improve outbreak response<\/p>\n","related_links":false,"source_article":[{"publication_title":"Integrated population clustering and genomic epidemiology with PopPIPE","publication_link":{"title":"","url":"https:\/\/www.microbiologyresearch.org\/content\/journal\/mgen\/10.1099\/mgen.0.001404","target":""},"publication_authors":"McHugh M.P., et al ","publication_source":"Microbial Genomics ","publication_date":"28 April 2025","publication_doi":"10.1099\/mgen.0.001404"}],"in_this_article":false,"press_contact":"None","article_translations":false,"languages":""},"embl_taxonomy_terms":[{"uuid":"a:3:{i:0;s:36:\"b14d3f13-5670-44fb-8970-e54dfd9c921a\";i:1;s:36:\"89e00fee-87f4-482e-a801-4c3548bb6a58\";i:2;s:36:\"a99d1a7c-ca83-4c00-ab61-d082d3e41ce3\";}","parents":[],"name":["EMBL-EBI"],"slug":"embl-ebi","description":"Where &gt; All EMBL sites &gt; EMBL-EBI"},{"uuid":"a:2:{i:0;s:36:\"4428d1fd-441a-4d6d-a1c5-5dcf5665f213\";i:1;s:36:\"bae2d623-0600-4709-87fc-57eb703afc08\";}","parents":[],"name":["John Lees"],"slug":"john-lees","description":"Who &gt; John Lees"},{"uuid":"a:3:{i:0;s:36:\"302cfdf7-365b-462a-be65-82c7b783ebf7\";i:1;s:36:\"442a4893-2c31-4523-b9eb-fb1ee4bd2037\";i:2;s:36:\"232c135e-2db9-4a81-b72d-656b5ae845e5\";}","parents":[],"name":["Lees Group"],"slug":"lees-group","description":"What &gt; EMBL-EBI Research &gt; Lees Group"}],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v26.2 - https:\/\/yoast.com\/wordpress\/plugins\/seo\/ -->\n<title>Case study: EMBL-EBI tool enables genomic outbreak surveillance for NHS Scotland | EMBL<\/title>\n<meta name=\"description\" content=\"A new genomic analysis tool developed at EMBL-EBI, is helping NHS Scotland tackle antimicrobial resistance and improve outbreak response.\" \/>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"Case study: EMBL-EBI tool enables genomic outbreak surveillance for NHS Scotland | EMBL\" \/>\n<meta property=\"og:description\" content=\"A new genomic analysis tool developed at EMBL-EBI, is helping NHS Scotland tackle antimicrobial resistance and improve outbreak response.\" \/>\n<meta property=\"og:url\" content=\"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/\" \/>\n<meta property=\"og:site_name\" content=\"EMBL\" \/>\n<meta property=\"article:publisher\" content=\"https:\/\/www.facebook.com\/embl.org\/\" \/>\n<meta property=\"article:published_time\" content=\"2025-11-19T10:35:25+00:00\" \/>\n<meta property=\"article:modified_time\" content=\"2025-11-19T10:35:28+00:00\" \/>\n<meta property=\"og:image\" content=\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2025\/11\/2025-LEES-PopPIPE-1000x600-1.png\" \/>\n\t<meta property=\"og:image:width\" content=\"1000\" \/>\n\t<meta property=\"og:image:height\" content=\"600\" \/>\n\t<meta property=\"og:image:type\" content=\"image\/png\" \/>\n<meta name=\"author\" content=\"Vicky Hatch\" \/>\n<meta name=\"twitter:card\" content=\"summary_large_image\" \/>\n<meta name=\"twitter:creator\" content=\"@embl\" \/>\n<meta name=\"twitter:site\" content=\"@embl\" \/>\n<meta name=\"twitter:label1\" content=\"Written by\" \/>\n\t<meta name=\"twitter:data1\" content=\"Vicky Hatch\" \/>\n\t<meta name=\"twitter:label2\" content=\"Est. reading time\" \/>\n\t<meta name=\"twitter:data2\" content=\"3 minutes\" \/>\n<script type=\"application\/ld+json\" class=\"yoast-schema-graph\">{\"@context\":\"https:\/\/schema.org\",\"@graph\":[{\"@type\":\"NewsArticle\",\"@id\":\"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/#article\",\"isPartOf\":{\"@id\":\"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/\"},\"author\":{\"name\":\"Vicky Hatch\",\"@id\":\"https:\/\/www.embl.org\/news\/#\/schema\/person\/d8477ba2d7a6164b141a3872a25ee982\"},\"headline\":\"Case study: EMBL-EBI tool enables genomic outbreak surveillance for NHS Scotland\",\"datePublished\":\"2025-11-19T10:35:25+00:00\",\"dateModified\":\"2025-11-19T10:35:28+00:00\",\"mainEntityOfPage\":{\"@id\":\"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/\"},\"wordCount\":592,\"publisher\":{\"@id\":\"https:\/\/www.embl.org\/news\/#organization\"},\"image\":{\"@id\":\"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/#primaryimage\"},\"thumbnailUrl\":\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2025\/11\/2025-LEES-PopPIPE-1000x600-1.png\",\"keywords\":[\"antimicrobial resistance\",\"bioinformatics\",\"case study\",\"embl-ebi\",\"genomics\",\"lees\",\"microbial systems\",\"microbiology\",\"research highlight\"],\"articleSection\":[\"Research highlights\",\"Science &amp; Technology\"],\"inLanguage\":\"en-US\"},{\"@type\":\"WebPage\",\"@id\":\"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/\",\"url\":\"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/\",\"name\":\"Case study: EMBL-EBI tool enables genomic outbreak surveillance for NHS Scotland | EMBL\",\"isPartOf\":{\"@id\":\"https:\/\/www.embl.org\/news\/#website\"},\"primaryImageOfPage\":{\"@id\":\"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/#primaryimage\"},\"image\":{\"@id\":\"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/#primaryimage\"},\"thumbnailUrl\":\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2025\/11\/2025-LEES-PopPIPE-1000x600-1.png\",\"datePublished\":\"2025-11-19T10:35:25+00:00\",\"dateModified\":\"2025-11-19T10:35:28+00:00\",\"description\":\"A new genomic analysis tool developed at EMBL-EBI, is helping NHS Scotland tackle antimicrobial resistance and improve outbreak response.\",\"inLanguage\":\"en-US\",\"potentialAction\":[{\"@type\":\"ReadAction\",\"target\":[\"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/\"]}]},{\"@type\":\"ImageObject\",\"inLanguage\":\"en-US\",\"@id\":\"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/#primaryimage\",\"url\":\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2025\/11\/2025-LEES-PopPIPE-1000x600-1.png\",\"contentUrl\":\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2025\/11\/2025-LEES-PopPIPE-1000x600-1.png\",\"width\":1000,\"height\":600,\"caption\":\"NHS Scotland genomic outbreak surveillance. Credit: Karen Arnott\/EMBL-EBI\"},{\"@type\":\"WebSite\",\"@id\":\"https:\/\/www.embl.org\/news\/#website\",\"url\":\"https:\/\/www.embl.org\/news\/\",\"name\":\"European Molecular Biology Laboratory News\",\"description\":\"News from the European Molecular Biology Laboratory\",\"publisher\":{\"@id\":\"https:\/\/www.embl.org\/news\/#organization\"},\"alternateName\":\"EMBL News\",\"potentialAction\":[{\"@type\":\"SearchAction\",\"target\":{\"@type\":\"EntryPoint\",\"urlTemplate\":\"https:\/\/www.embl.org\/news\/?s={search_term_string}\"},\"query-input\":{\"@type\":\"PropertyValueSpecification\",\"valueRequired\":true,\"valueName\":\"search_term_string\"}}],\"inLanguage\":\"en-US\"},{\"@type\":\"Organization\",\"@id\":\"https:\/\/www.embl.org\/news\/#organization\",\"name\":\"European Molecular Biology Laboratory\",\"alternateName\":\"EMBL\",\"url\":\"https:\/\/www.embl.org\/news\/\",\"logo\":{\"@type\":\"ImageObject\",\"inLanguage\":\"en-US\",\"@id\":\"https:\/\/www.embl.org\/news\/#\/schema\/logo\/image\/\",\"url\":\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2025\/09\/EMBL_logo_colour-1-300x144-1.png\",\"contentUrl\":\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2025\/09\/EMBL_logo_colour-1-300x144-1.png\",\"width\":300,\"height\":144,\"caption\":\"European Molecular Biology Laboratory\"},\"image\":{\"@id\":\"https:\/\/www.embl.org\/news\/#\/schema\/logo\/image\/\"},\"sameAs\":[\"https:\/\/www.facebook.com\/embl.org\/\",\"https:\/\/x.com\/embl\",\"https:\/\/www.instagram.com\/embl_org\/\",\"https:\/\/www.linkedin.com\/company\/15813\/\",\"https:\/\/www.youtube.com\/user\/emblmedia\/\"]},{\"@type\":\"Person\",\"@id\":\"https:\/\/www.embl.org\/news\/#\/schema\/person\/d8477ba2d7a6164b141a3872a25ee982\",\"name\":\"Vicky Hatch\",\"image\":{\"@type\":\"ImageObject\",\"inLanguage\":\"en-US\",\"@id\":\"https:\/\/www.embl.org\/news\/#\/schema\/person\/image\/\",\"url\":\"https:\/\/secure.gravatar.com\/avatar\/6d864d58088d9e60f42c501aa30714d303efc1ca5aed268210905409910b90d5?s=96&d=mm&r=g\",\"contentUrl\":\"https:\/\/secure.gravatar.com\/avatar\/6d864d58088d9e60f42c501aa30714d303efc1ca5aed268210905409910b90d5?s=96&d=mm&r=g\",\"caption\":\"Vicky Hatch\"},\"url\":\"https:\/\/www.embl.org\/news\/author\/vicky-hatch-2-2-2-2-2-2-2-2-2-2-2-2-2-2-2-2-2-2--2\/\"}]}<\/script>\n<!-- \/ Yoast SEO plugin. -->","yoast_head_json":{"title":"Case study: EMBL-EBI tool enables genomic outbreak surveillance for NHS Scotland | EMBL","description":"A new genomic analysis tool developed at EMBL-EBI, is helping NHS Scotland tackle antimicrobial resistance and improve outbreak response.","robots":{"index":"index","follow":"follow","max-snippet":"max-snippet:-1","max-image-preview":"max-image-preview:large","max-video-preview":"max-video-preview:-1"},"canonical":"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/","og_locale":"en_US","og_type":"article","og_title":"Case study: EMBL-EBI tool enables genomic outbreak surveillance for NHS Scotland | EMBL","og_description":"A new genomic analysis tool developed at EMBL-EBI, is helping NHS Scotland tackle antimicrobial resistance and improve outbreak response.","og_url":"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/","og_site_name":"EMBL","article_publisher":"https:\/\/www.facebook.com\/embl.org\/","article_published_time":"2025-11-19T10:35:25+00:00","article_modified_time":"2025-11-19T10:35:28+00:00","og_image":[{"width":1000,"height":600,"url":"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2025\/11\/2025-LEES-PopPIPE-1000x600-1.png","type":"image\/png"}],"author":"Vicky Hatch","twitter_card":"summary_large_image","twitter_creator":"@embl","twitter_site":"@embl","twitter_misc":{"Written by":"Vicky Hatch","Est. reading time":"3 minutes"},"schema":{"@context":"https:\/\/schema.org","@graph":[{"@type":"NewsArticle","@id":"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/#article","isPartOf":{"@id":"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/"},"author":{"name":"Vicky Hatch","@id":"https:\/\/www.embl.org\/news\/#\/schema\/person\/d8477ba2d7a6164b141a3872a25ee982"},"headline":"Case study: EMBL-EBI tool enables genomic outbreak surveillance for NHS Scotland","datePublished":"2025-11-19T10:35:25+00:00","dateModified":"2025-11-19T10:35:28+00:00","mainEntityOfPage":{"@id":"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/"},"wordCount":592,"publisher":{"@id":"https:\/\/www.embl.org\/news\/#organization"},"image":{"@id":"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/#primaryimage"},"thumbnailUrl":"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2025\/11\/2025-LEES-PopPIPE-1000x600-1.png","keywords":["antimicrobial resistance","bioinformatics","case study","embl-ebi","genomics","lees","microbial systems","microbiology","research highlight"],"articleSection":["Research highlights","Science &amp; Technology"],"inLanguage":"en-US"},{"@type":"WebPage","@id":"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/","url":"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/","name":"Case study: EMBL-EBI tool enables genomic outbreak surveillance for NHS Scotland | EMBL","isPartOf":{"@id":"https:\/\/www.embl.org\/news\/#website"},"primaryImageOfPage":{"@id":"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/#primaryimage"},"image":{"@id":"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/#primaryimage"},"thumbnailUrl":"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2025\/11\/2025-LEES-PopPIPE-1000x600-1.png","datePublished":"2025-11-19T10:35:25+00:00","dateModified":"2025-11-19T10:35:28+00:00","description":"A new genomic analysis tool developed at EMBL-EBI, is helping NHS Scotland tackle antimicrobial resistance and improve outbreak response.","inLanguage":"en-US","potentialAction":[{"@type":"ReadAction","target":["https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/"]}]},{"@type":"ImageObject","inLanguage":"en-US","@id":"https:\/\/www.embl.org\/news\/science-technology\/case-study-embl-ebi-tool-enables-genomic-outbreak-surveillance-for-nhs-scotland\/#primaryimage","url":"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2025\/11\/2025-LEES-PopPIPE-1000x600-1.png","contentUrl":"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2025\/11\/2025-LEES-PopPIPE-1000x600-1.png","width":1000,"height":600,"caption":"NHS Scotland genomic outbreak surveillance. Credit: Karen Arnott\/EMBL-EBI"},{"@type":"WebSite","@id":"https:\/\/www.embl.org\/news\/#website","url":"https:\/\/www.embl.org\/news\/","name":"European Molecular Biology Laboratory News","description":"News from the European Molecular Biology Laboratory","publisher":{"@id":"https:\/\/www.embl.org\/news\/#organization"},"alternateName":"EMBL News","potentialAction":[{"@type":"SearchAction","target":{"@type":"EntryPoint","urlTemplate":"https:\/\/www.embl.org\/news\/?s={search_term_string}"},"query-input":{"@type":"PropertyValueSpecification","valueRequired":true,"valueName":"search_term_string"}}],"inLanguage":"en-US"},{"@type":"Organization","@id":"https:\/\/www.embl.org\/news\/#organization","name":"European Molecular Biology Laboratory","alternateName":"EMBL","url":"https:\/\/www.embl.org\/news\/","logo":{"@type":"ImageObject","inLanguage":"en-US","@id":"https:\/\/www.embl.org\/news\/#\/schema\/logo\/image\/","url":"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2025\/09\/EMBL_logo_colour-1-300x144-1.png","contentUrl":"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2025\/09\/EMBL_logo_colour-1-300x144-1.png","width":300,"height":144,"caption":"European Molecular Biology Laboratory"},"image":{"@id":"https:\/\/www.embl.org\/news\/#\/schema\/logo\/image\/"},"sameAs":["https:\/\/www.facebook.com\/embl.org\/","https:\/\/x.com\/embl","https:\/\/www.instagram.com\/embl_org\/","https:\/\/www.linkedin.com\/company\/15813\/","https:\/\/www.youtube.com\/user\/emblmedia\/"]},{"@type":"Person","@id":"https:\/\/www.embl.org\/news\/#\/schema\/person\/d8477ba2d7a6164b141a3872a25ee982","name":"Vicky Hatch","image":{"@type":"ImageObject","inLanguage":"en-US","@id":"https:\/\/www.embl.org\/news\/#\/schema\/person\/image\/","url":"https:\/\/secure.gravatar.com\/avatar\/6d864d58088d9e60f42c501aa30714d303efc1ca5aed268210905409910b90d5?s=96&d=mm&r=g","contentUrl":"https:\/\/secure.gravatar.com\/avatar\/6d864d58088d9e60f42c501aa30714d303efc1ca5aed268210905409910b90d5?s=96&d=mm&r=g","caption":"Vicky Hatch"},"url":"https:\/\/www.embl.org\/news\/author\/vicky-hatch-2-2-2-2-2-2-2-2-2-2-2-2-2-2-2-2-2-2--2\/"}]}},"field_target_display":"both","field_article_language":{"value":"english","label":"English"},"fimg_url":"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2025\/11\/2025-LEES-PopPIPE-1000x600-1.png","featured_image_src":"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2025\/11\/2025-LEES-PopPIPE-1000x600-1.png","_links":{"self":[{"href":"https:\/\/www.embl.org\/news\/wp-json\/wp\/v2\/posts\/77215","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.embl.org\/news\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/www.embl.org\/news\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/www.embl.org\/news\/wp-json\/wp\/v2\/users\/77"}],"replies":[{"embeddable":true,"href":"https:\/\/www.embl.org\/news\/wp-json\/wp\/v2\/comments?post=77215"}],"version-history":[{"count":2,"href":"https:\/\/www.embl.org\/news\/wp-json\/wp\/v2\/posts\/77215\/revisions"}],"predecessor-version":[{"id":77225,"href":"https:\/\/www.embl.org\/news\/wp-json\/wp\/v2\/posts\/77215\/revisions\/77225"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/www.embl.org\/news\/wp-json\/wp\/v2\/media\/77217"}],"wp:attachment":[{"href":"https:\/\/www.embl.org\/news\/wp-json\/wp\/v2\/media?parent=77215"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/www.embl.org\/news\/wp-json\/wp\/v2\/categories?post=77215"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/www.embl.org\/news\/wp-json\/wp\/v2\/tags?post=77215"},{"taxonomy":"embl_taxonomy","embeddable":true,"href":"https:\/\/www.embl.org\/news\/wp-json\/wp\/v2\/embl_taxonomy?post=77215"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}