{"id":67,"date":"2020-06-22T09:55:52","date_gmt":"2020-06-22T09:55:52","guid":{"rendered":"https:\/\/www.embl.org\/groups\/metabolomics\/?page_id=67"},"modified":"2026-02-25T07:21:31","modified_gmt":"2026-02-25T07:21:31","slug":"services","status":"publish","type":"page","link":"https:\/\/www.embl.org\/groups\/metabolomics\/services\/","title":{"rendered":"Services"},"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<h3 class=\"wp-block-heading\">Targeted Metabolomics Analysis<\/h3>\n\n\n\n<p>We perform quantitative and semi-quantitative analysis of known metabolites using LC-MS\/MS(MRM) system <a href=\"https:\/\/sciex.com\/products\/mass-spectrometers\/qtrap-systems\/qtrap-6500plus-system\" target=\"_blank\" rel=\"noreferrer noopener\">Triple Quadrupole with an ion trap (QTRAP 6500+ from Sciex)<\/a>. We can also perform quantification of metabolites using stable-isotope labeled internal standards or semi-quantitative analysis using external standards upon request.<\/p>\n\n\n\n<p>We have developed protocols to monitor over<a href=\"https:\/\/docs.google.com\/spreadsheets\/d\/12rEkZZWz9pmd4glIo3H-ztoYaJqdwiNk\/edit?usp=drive_link&amp;ouid=113210830455403382247&amp;rtpof=true&amp;sd=true\" data-type=\"URL\" data-id=\"https:\/\/docs.google.com\/spreadsheets\/d\/12rEkZZWz9pmd4glIo3H-ztoYaJqdwiNk\/edit?usp=drive_link&amp;ouid=113210830455403382247&amp;rtpof=true&amp;sd=true\"> 300 metabolites<\/a> (EMBL-MCF 2.0) in a targeted manner. For high-sensitivity analysis, we can perform the analysis of the specific metabolites using optimized protocols. The different metabolites can also have different sample requirements.<\/p>\n\n\n\n<h3 class=\"wp-block-heading\">Untargeted Metabolomics&nbsp;and\/or Lipidomics Analysis<\/h3>\n\n\n\n<p>We perform global profiling of lipids and metabolites in an untargeted manner which can be used for broad profiling or for discovery studies (<a href=\"https:\/\/youtu.be\/g3NNRUaimNE\" target=\"_blank\" rel=\"noreferrer noopener\">video<\/a>).<\/p>\n\n\n\n<p><strong>Metabolomics<\/strong><\/p>\n\n\n\n<p>Untargeted metabolomics is performed using the Orbitrap Exploris 240 high-resolution mass spectrometer (ThermoFisher) in positive and\/or negative ionization mode coupled with ultra-high performance liquid chromatography (Vanquish UHPLC) in HILIC separation mode.<\/p>\n\n\n\n<p><a href=\"https:\/\/docs.google.com\/spreadsheets\/d\/1J67j2mOz5gEeyds6jjsy2JCcobzdUyDDhf5y2o2hmRM\/edit#gid=0#gid=0\">HILIC (ESI+\/-ve)<\/a> (please see a <a href=\"https:\/\/www.sciencedirect.com\/science\/article\/pii\/S1934590919302681?via%3Dihub\">case study<\/a> published in <em>Cell Stem Cell<\/em>)<\/p>\n\n\n\n<p><strong>Lipidomics<\/strong><\/p>\n\n\n\n<p>Lipidomics and free fatty acids analysis are performed using the Orbitrap Exploris 240 high-resolution mass spectrometer (ThermoFisher) coupled with ultra-high performance liquid chromatography (Vanquish UHPLC) in reversed-phase (RP) separation mode.<\/p>\n\n\n\n<ul class=\"wp-block-list\">\n<li><a href=\"https:\/\/docs.google.com\/spreadsheets\/d\/1MU2EVqGKClbB8tpI7hv7bfnt2iHyQ6S1YQIGWsjJ860\/edit?usp=sharing\" target=\"_blank\" rel=\"noreferrer noopener\">Lipidomics<\/a> (please see a <a href=\"https:\/\/www.sciencedirect.com\/science\/article\/pii\/S1934590919302681?via%3Dihub\" target=\"_blank\" rel=\"noreferrer noopener\">case study<\/a> published in <em>Cell Stem Cell<\/em>)<\/li>\n\n\n\n<li><a href=\"https:\/\/docs.google.com\/spreadsheets\/d\/16e-hQG-NRwRaqU4r4MhsFFOJlRKxwXYhg2EDO2dzz0U\/edit?usp=sharing\" target=\"_blank\" rel=\"noreferrer noopener\">Fatty acids<\/a> (please see a <a href=\"https:\/\/diabetes.diabetesjournals.org\/content\/67\/10\/1986\" target=\"_blank\" rel=\"noreferrer noopener\">case study<\/a> published in <em>Diabetes<\/em>)<\/li>\n<\/ul>\n\n\n\n<h3 class=\"wp-block-heading\">Metabolite identification<\/h3>\n\n\n\n<p>We perform structural identification of metabolic features of interest by matching acquired data against our in-house&nbsp;EMBL-MCF spectral library, comprising <a href=\"https:\/\/docs.google.com\/spreadsheets\/d\/12rEkZZWz9pmd4glIo3H-ztoYaJqdwiNk\/edit?usp=drive_link&amp;ouid=113210830455403382247&amp;rtpof=true&amp;sd=true\">~300 metabolites<\/a>, which allows us to provide identification with highest confidence (Level I ID &#8211; via accurate mass, isotopic pattern, MS\/MS spectra, retention time). In addition, the analysis of unknown features of interest can be supplemented by utilizing other public libraries to annotate compounds (Level II ID &#8211; without retention time).<\/p>\n\n\n\n<h3 class=\"wp-block-heading\">Lipid identification<\/h3>\n\n\n\n<p>For lipid identification we utilize a public library (<a href=\"http:\/\/prime.psc.riken.jp\/compms\/msdial\/main.html#MSP\">MS-DIAL LipidBlast<\/a>) covering over 100 lipid classes and over 1.3 million spectra. In addition, we evaluate elution patterns of homologous lipid species within lipid classes to ensure highest level confidence in identification.<\/p>\n\n\n\n<h3 class=\"wp-block-heading\">Drug and drug metabolite analysis<\/h3>\n\n\n\n<p>We perform the detection and quantitation of drug and drug metabolites from various biological samples for pharmacokinetics and drug metabolism analysis (non-GLP), biotransformation, and bioaccumulation screenings. For this, we use standard calibration curves and internal standards based quantitative analysis using high-resolution <a rel=\"noreferrer noopener\" href=\"http:\/\/www.thermoscientific.com\/en\/product\/q-exactive-plus-hybrid-quadrupole-orbitrap-mass-spectrometer.html\" target=\"_blank\">Q-Exactive Plus (ThermoFisher)<\/a> mass spectrometer coupled with ultra-high performance liquid chromatography (<a rel=\"noreferrer noopener\" href=\"https:\/\/www.thermofisher.com\/ca\/en\/home\/industrial\/chromatography\/liquid-chromatography-lc\/hplc-uhplc-systems\/vanquish-uhplc-systems.html\" target=\"_blank\">Vanquish UHPLC<\/a>) in reversed-phase (RP) and\/or HILIC separation mode.<\/p>\n\n\n\n<h3 class=\"wp-block-heading\">Other services<\/h3>\n\n\n\n<p>When there are no methods available or existing methods fail to achieve the required sensitivity, coverage or reliability, we can perform method development tailored for specific applications e.g. analysis of drugs and drug metabolites, modified metabolites, plant samples as well as special classes of metabolites at an additional cost.<\/p>\n\n<\/div>\n<\/div>\n\n\n<div><!--[vf\/content]-->\n<div class=\"vf-content\">\n<div class=\"vf-links\">\n      <h3 class=\"vf-links__heading\">See also:<\/h3>\n    <ul class=\"vf-links__list vf-list\">\n    <li class=\"vf-list__item\">\n          <a class=\"vf-list__link\" href=\"https:\/\/www.embl.org\/internal-information\/scientific-services-fees\/#metabolomics\">\n        Service fees (internal users)      <\/a>\n      <\/li>\n    <li class=\"vf-list__item\">\n          <a class=\"vf-list__link\" href=\"https:\/\/www.embl.org\/groups\/metabolomics\/service-fees-external-users\/\">\n        Service fees (external users)      <\/a>\n      <\/li>\n    <li class=\"vf-list__item\">\n      <\/li>\n    <li class=\"vf-list__item\">\n          <a class=\"vf-list__link\" href=\"https:\/\/www.embl.org\/about\/member-states\/\">\n        Info about EMBL member states      <\/a>\n      <\/li>\n  <\/ul>\n\n<\/div>\n\n<\/div>\n<\/div>\n<\/div>\n","protected":false},"excerpt":{"rendered":"","protected":false},"author":3,"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-67","page","type-page","status-publish","hentry"],"acf":[],"embl_taxonomy_terms":[],"_links":{"self":[{"href":"https:\/\/www.embl.org\/groups\/metabolomics\/wp-json\/wp\/v2\/pages\/67","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.embl.org\/groups\/metabolomics\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/www.embl.org\/groups\/metabolomics\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/www.embl.org\/groups\/metabolomics\/wp-json\/wp\/v2\/users\/3"}],"replies":[{"embeddable":true,"href":"https:\/\/www.embl.org\/groups\/metabolomics\/wp-json\/wp\/v2\/comments?post=67"}],"version-history":[{"count":21,"href":"https:\/\/www.embl.org\/groups\/metabolomics\/wp-json\/wp\/v2\/pages\/67\/revisions"}],"predecessor-version":[{"id":26439,"href":"https:\/\/www.embl.org\/groups\/metabolomics\/wp-json\/wp\/v2\/pages\/67\/revisions\/26439"}],"wp:attachment":[{"href":"https:\/\/www.embl.org\/groups\/metabolomics\/wp-json\/wp\/v2\/media?parent=67"}],"wp:term":[{"taxonomy":"embl_taxonomy","embeddable":true,"href":"https:\/\/www.embl.org\/groups\/metabolomics\/wp-json\/wp\/v2\/embl_taxonomy?post=67"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}