{"id":16353,"date":"2024-08-22T07:26:12","date_gmt":"2024-08-22T07:26:12","guid":{"rendered":"https:\/\/www.embl.org\/groups\/typas\/?page_id=16353"},"modified":"2025-11-03T09:48:34","modified_gmt":"2025-11-03T09:48:34","slug":"resources","status":"publish","type":"page","link":"https:\/\/www.embl.org\/groups\/typas\/resources\/","title":{"rendered":"Resources"},"content":{"rendered":"\n<div class=\"vf-grid | vf-grid__col-3\"><div class=\"vf-grid__col--span-2\"><!--[vf\/content]-->\n<div class=\"vf-content\">\n\n<article class=\"vf-summary \">\n    <h3 class=\"vf-summary__title\">\n          <a href=\"https:\/\/ecoli-darkgen.shinyapps.io\/app-1\/\" class=\"vf-summary__link\" target=\"\">\n    \n    1. Exploring the dark (and not so dark) genome of E. coli\n    <\/a>\n    <\/h3>\n\n  <p class=\"vf-summary__text\">Chemical genetic data of <em>E. coli<\/em> K12 (<a href=\"https:\/\/doi.org\/10.1038\/msb.2009.92\">Keio deletion library<\/a> &amp; a <a href=\"https:\/\/www.nature.com\/articles\/s41586-018-0124-0\">transposon library<\/a>) from different studies (<a href=\"https:\/\/www.cell.com\/cell\/fulltext\/S0092-8674(10)01374-7?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS0092867410013747%3Fshowall%3Dtrue\">Nichols <em>et al.<\/em> Cell 2011<\/a>; <a href=\"https:\/\/dx.plos.org\/10.1371\/journal.pgen.1006124\">Shiver <em>et al.<\/em> Plos Genetics 2016<\/a>; <a href=\"https:\/\/www.nature.com\/articles\/s41586-018-0124-0\">Price <em>et al.<\/em> Nature 2018<\/a>), and unpublished data from the Typas lab.<\/p>\n<\/article>\n\n\n\n<article class=\"vf-summary \">\n    <h3 class=\"vf-summary__title\">\n          <a href=\"https:\/\/evocellnet.github.io\/ecoref\/\" class=\"vf-summary__link\" target=\"\">\n    \n    2. E. coli strain collection phenotype data\n    <\/a>\n    <\/h3>\n\n  <p class=\"vf-summary__text\">Fitness data in &gt; 200 conditions, genomic sequence info and variant calling from a collection of ~ 700 E. coli strain natural isolates from\u00a0<a class=\"\" href=\"https:\/\/www.embl.org\/groups\/typas\/resources\/\">Galardini <i class=\"\">et al.<\/i> eLife 2017<\/a><\/p>\n<\/article>\n\n\n\n<article class=\"vf-summary \">\n    <h3 class=\"vf-summary__title\">\n          <a href=\"https:\/\/apps.embl.de\/ecolitpp\/\" class=\"vf-summary__link\" target=\"\">\n    \n    3. Thermal proteome profiling of Escherichia coli mutants\n    <\/a>\n    <\/h3>\n\n  <p class=\"vf-summary__text\">Protein abundance and thermal stability data for ~ 1,800 proteins in 121 <em>E. coli<\/em> mutants \u2013 from <a href=\"https:\/\/www.nature.com\/articles\/s41586-020-3002-5\">Mateus et al. Nature 2020<\/a>.<\/p>\n<\/article>\n\n\n\n<article class=\"vf-summary \">\n    <h3 class=\"vf-summary__title\">\n          <a href=\"https:\/\/apps.embl.de\/combact\/\" class=\"vf-summary__link\" target=\"\">\n    \n    4. Combinatorial Screen Explorer\n    <\/a>\n    <\/h3>\n\n  <p class=\"vf-summary__text\">Drug combination data in thee Gram-positive species \u2013 from <a href=\"https:\/\/www.nature.com\/articles\/s41564-023-01486-9\">Cacace <em>et al.<\/em> Nature Microbiology 2023<\/a>.<\/p>\n<\/article>\n\n\n\n<article class=\"vf-summary \">\n    <h3 class=\"vf-summary__title\">\n          <a href=\"https:\/\/shiny-portal.embl.de\/shinyapps\/app\/21_xrcs\" class=\"vf-summary__link\" target=\"\">\n    \n    5. XRCS\n    <\/a>\n    <\/h3>\n\n  <p class=\"vf-summary__text\">Drug cross-resistance and collateral sensitivity data in <em class=\"\">E. coli<\/em> \u2013 from\u00a0<a class=\"\" href=\"https:\/\/www.nature.com\/articles\/s41564-024-01857-w\">Sakenova <em class=\"\">et al.<\/em> Nature Microbiol 2025<\/a>.<\/p>\n<\/article>\n\n\n\n<p><\/p>\n\n<\/div>\n<\/div>\n\n\n<div><!--[vf\/content]-->\n<div class=\"vf-content\">\n\n<\/div>\n<\/div>\n<\/div>\n","protected":false},"excerpt":{"rendered":"","protected":false},"author":2,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"template-title-left-aligned.php","meta":{"_acf_changed":false,"footnotes":""},"embl_taxonomy":[],"class_list":["post-16353","page","type-page","status-publish","hentry"],"acf":[],"embl_taxonomy_terms":[],"_links":{"self":[{"href":"https:\/\/www.embl.org\/groups\/typas\/wp-json\/wp\/v2\/pages\/16353","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.embl.org\/groups\/typas\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/www.embl.org\/groups\/typas\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/www.embl.org\/groups\/typas\/wp-json\/wp\/v2\/users\/2"}],"replies":[{"embeddable":true,"href":"https:\/\/www.embl.org\/groups\/typas\/wp-json\/wp\/v2\/comments?post=16353"}],"version-history":[{"count":6,"href":"https:\/\/www.embl.org\/groups\/typas\/wp-json\/wp\/v2\/pages\/16353\/revisions"}],"predecessor-version":[{"id":23801,"href":"https:\/\/www.embl.org\/groups\/typas\/wp-json\/wp\/v2\/pages\/16353\/revisions\/23801"}],"wp:attachment":[{"href":"https:\/\/www.embl.org\/groups\/typas\/wp-json\/wp\/v2\/media?parent=16353"}],"wp:term":[{"taxonomy":"embl_taxonomy","embeddable":true,"href":"https:\/\/www.embl.org\/groups\/typas\/wp-json\/wp\/v2\/embl_taxonomy?post=16353"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}