{"id":14,"date":"2020-06-08T10:52:29","date_gmt":"2020-06-08T10:52:29","guid":{"rendered":"https:\/\/www.embl.org\/groups\/proteomics\/home\/"},"modified":"2025-10-09T14:34:29","modified_gmt":"2025-10-09T14:34:29","slug":"home","status":"publish","type":"page","link":"https:\/\/www.embl.org\/groups\/proteomics\/","title":{"rendered":"Home"},"content":{"rendered":"<div class=\"vf-grid vf-grid__col-3 | vf-u-margin__bottom--800\">\n      <div class=\"vf-grid__col--span-2\">\n      <div class=\"vf-content-hub-html\">\n  <!-- Generated by: http:\/\/content.embl.org\/api\/v1\/pattern.html?filter-content-type=profiles&amp;filter-uuid=03134396-a6d4-4450-986c-cd806c85f0a7&amp;pattern=node-teaser -->\n      <div data-embl-js-conditional-edit=\"28186\">\n              <h1 class=\"vf-lede\">The Proteomics Core Facility offers comprehensive protein and peptide analyses using state-of-the-art LC-MS\/MS mass spectrometry. Our services are complemented by advanced sample processing workflows and expert support in experimental design, data interpretation and statistical analysis.<\/p>\r\n\n            <a class=\"vf-text vf-text--body-r vf-link embl-conditional-edit\" rel=\"noopener noreferrer nofollow\" href=\"\/node\/28186\" target=\"_blank\">Edit<\/a>\n    <\/div>\n  <\/div>\n    <\/div>\n      <div >\n\n<!-- <style>\n  .vf-content-hub-html {\n    --vf-stack-margin--custom: unset !important;\n  }\n<\/style> -->\n\n    <div class=\"vf-content-hub-html vf-stack vf-stack--600\" data-cache=\"e3c86f8c\">\n      <!-- Generated by: http:\/\/content.embl.org\/api\/v1\/pattern.html?filter-content-type=person&amp;filter-field-value%5Bfield_person_positions.entity.field_position_membership%5D=leader&amp;filter-field-value%5Bfield_person_positions.entity.field_position_team.entity.field_foreignid%5D=165&amp;filter-ref-entity%5Bfield_person_positions%5D%5Btitle%5D=&amp;filter-ref-entity%5Bfield_person_positions%5D%5Bfield_position_primary%5D=1&amp;hide%5Bteam%2Cmobile%2Cphones%5D=1&amp;limit=5&amp;pattern=vf-profile-inline&amp;sort-field-value%5Bchanged%5D=DESC -->\n                \n                            <article class=\"vf-profile vf-profile--very-easy vf-profile--medium vf-profile--inline\" data-embl-js-conditional-edit=\"77840\">\n              <img decoding=\"async\" class=\"vf-profile__image\" src=\"https:\/\/content.embl.org\/\/sites\/default\/files\/styles\/medium\/public\/persons\/CP-60008579.jpg?itok=8O2ZbX0f\" alt=\"image of Mikhail Savitski\" \/>\n      \n              <h3 class=\"vf-profile__title\">\n                      <a href=\"https:\/\/www.embl.org\/people\/person\/mikhail-savitski\" class=\"vf-profile__link\">Mikhail Savitski<\/a>\n                  <\/h3>\n      \n              <p class=\"vf-profile__job-title\">\n          Team Leader, Senior Scientist and Head of Proteomics Core Facility\n        <\/p>\n      \n      \n      \n      \n      \n      \n              <p class=\"vf-profile__uuid\">\n          <span>ORCID:<\/span>\n          <a class=\"vf-profile__link vf-profile__link--secondary\" href=\"https:\/\/europepmc.org\/authors\/0000-0003-2011-9247\">\n            0000-0003-2011-9247\n          <\/a>\n        <\/p>\n            <a class=\"vf-text vf-text--body-r vf-link embl-conditional-edit\" rel=\"noopener noreferrer nofollow\" href=\"\/node\/77840\/77840\" target=\"_blank\">\n        Edit\n      <\/a>\n    <\/article>\n  <\/div>\n\n  <\/div>\n<\/div>\n\n\n\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<p>The Proteomics Core Facility provides a full proteomic infrastructure for the identification, quantification and characterization of proteins. This includes various platforms for protein and peptide separation, and state-of-the-art mass spectrometry for LC-MS\/MS experiments.<\/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\n\n\n<hr class=\"vf-divider\">\n\n\n\n<div class=\"vf-grid | vf-grid__col-5\"><div><!--[vf\/content]-->\n<div class=\"vf-content\">\n<div class=\"vf-section-header | vf-u-margin__bottom--400\">\n  <h2 class=\"vf-section-header__heading\" \n    >\n  About the PCF  <\/h2>\n  <\/div>\n\n\n<\/div>\n<\/div>\n\n\n<div class=\"vf-grid__col--span-3\"><!--[vf\/content]-->\n<div class=\"vf-content\">\n\n<ul class=\"wp-block-list\">\n<li>More than 600 projects per year<\/li>\n\n\n\n<li>Supporting research groups at all EMBL sites and external groups <\/li>\n\n\n\n<li>Active member of the Proteomics working group <a href=\"https:\/\/coreforlife.sites.vib.be\/en\/proteomics-work-group\" data-type=\"link\" data-id=\"https:\/\/coreforlife.sites.vib.be\/en\/proteomics-work-group\" target=\"_blank\" rel=\"noreferrer noopener\">Core for Life<\/a><\/li>\n\n\n\n<li>Currently managing five mass spectrometers and seven HPLC systems<\/li>\n\n\n\n<li>Our instrumentation operates 24\/7<\/li>\n<\/ul>\n\n\n\n<div style=\"height:40px\" aria-hidden=\"true\" class=\"wp-block-spacer\"><\/div>\n\n\n\n<a href=\"https:\/\/www.embl.org\/groups\/proteomics\/members-pcf\/\" target=\"_blank\">\n<button class=\"vf-button vf-button--primary\">Members of the PCF<\/button>\n<\/a>\n<!--\/vf-button-->\n\n\n<\/div>\n<\/div>\n\n\n<div><!--[vf\/content]-->\n<div class=\"vf-content\">\n\n<article class=\"vf-card vf-card--brand vf-card--striped vf-u-margin__bottom--800\" default>\n  <div class=\"vf-card__content | vf-stack vf-stack--400\">\n      <h3 class=\"vf-card__heading\">\n      Contact us    <\/h3>\n                <p class=\"vf-card__text\"><!-- wp:paragraph -->\r\n\r\n<strong>Proteomics Core Facility<\/strong><br>\r\nEMBL Heidelberg<br>\r\nMeyerhofstra\u00dfe 1<br>\r\n69117 Heidelberg<br> Germany<br><br>\r\n\r\n<!-- \/wp:paragraph --> <!-- wp:paragraph -->\r\n\r\n<strong>Tel:<\/strong>\u00a0+49 6221 387-8388<br>\r\n<strong>Email:<\/strong>\u00a0<a class=\"vf-card_link\" href=\"mailto:pcf@embl.de\">pcf@embl.de<\/a>\r\n\r\n<!-- \/wp:paragraph --><\/p>\n      <\/div>\n<\/article>\n\n\n<\/div>\n<\/div>\n<\/div>\n\n\n\n<hr class=\"vf-divider\">\n\n\n\n<div class=\"vf-grid | vf-grid__col-5\"><div><!--[vf\/content]-->\n<div class=\"vf-content\">\n<div class=\"vf-section-header | vf-u-margin__bottom--400\">\n  <h2 class=\"vf-section-header__heading\" \n    >\n        <a class=\"vf-section-header__heading vf-section-header__heading--is-link\"\n            href=\"https:\/\/www.embl.org\/groups\/proteomics\/services\/\">Services<svg aria-hidden=\"true\" class=\"vf-section-header__icon | vf-icon vf-icon-arrow--inline-end\" width=\"24\" height=\"24\" xmlns=\"http:\/\/www.w3.org\/2000\/svg\"><path d=\"M0 12c0 6.627 5.373 12 12 12s12-5.373 12-12S18.627 0 12 0C5.376.008.008 5.376 0 12zm13.707-5.209l4.5 4.5a1 1 0 010 1.414l-4.5 4.5a1 1 0 01-1.414-1.414l2.366-2.367a.25.25 0 00-.177-.424H6a1 1 0 010-2h8.482a.25.25 0 00.177-.427l-2.366-2.368a1 1 0 011.414-1.414z\" fill=\"\" fill-rule=\"nonzero\"><\/path><\/svg><\/a>\n      <\/h2>\n  <\/div>\n\n\n<\/div>\n<\/div>\n\n\n<div class=\"vf-grid__col--span-3\"><!--[vf\/content]-->\n<div class=\"vf-content\">\n\n<ul class=\"wp-block-list\">\n<li>High resolution and high mass-accuracy LC-MS\/MS (Q-Exactive plus, Fusion Lumos, Exploris 480, Astral) for identification and quantification of proteins<\/li>\n\n\n\n<li>Processing of in-gel or in-solution samples<\/li>\n\n\n\n<li>Project planning, sample preparation, data acquisition and data analysis\/ visualization<\/li>\n<\/ul>\n\n\n\n<figure class=\"vf-figure wp-block-image size-large\"><img loading=\"lazy\" decoding=\"async\" width=\"1024\" height=\"330\" class=\"vf-figure__image\" src=\"https:\/\/www.embl.org\/groups\/proteomics\/wp-content\/uploads\/2025\/10\/PCF-workflow_lessSpace-1024x330.png\" alt=\"\" class=\"wp-image-25405\" srcset=\"https:\/\/www.embl.org\/groups\/proteomics\/wp-content\/uploads\/2025\/10\/PCF-workflow_lessSpace-1024x330.png 1024w, https:\/\/www.embl.org\/groups\/proteomics\/wp-content\/uploads\/2025\/10\/PCF-workflow_lessSpace-300x97.png 300w, https:\/\/www.embl.org\/groups\/proteomics\/wp-content\/uploads\/2025\/10\/PCF-workflow_lessSpace-768x247.png 768w, https:\/\/www.embl.org\/groups\/proteomics\/wp-content\/uploads\/2025\/10\/PCF-workflow_lessSpace-1536x495.png 1536w, https:\/\/www.embl.org\/groups\/proteomics\/wp-content\/uploads\/2025\/10\/PCF-workflow_lessSpace-2048x660.png 2048w\" sizes=\"auto, (max-width: 1024px) 100vw, 1024px\" \/><\/figure>\n\n<\/div>\n<\/div>\n\n\n<div><!--[vf\/content]-->\n<div class=\"vf-content\">\n\n<article class=\"vf-card vf-card--brand vf-card--bordered vf-u-margin__bottom--800\" default>\n<img decoding=\"async\" width=\"1024\" height=\"683\" src=\"https:\/\/www.embl.org\/groups\/proteomics\/wp-content\/uploads\/2020\/06\/Proteomics_17-l-2-1024x683.jpg\" class=\"vf-card__image\" alt=\"\" loading=\"lazy\" itemprop=\"image\" srcset=\"https:\/\/www.embl.org\/groups\/proteomics\/wp-content\/uploads\/2020\/06\/Proteomics_17-l-2-1024x683.jpg 1024w, https:\/\/www.embl.org\/groups\/proteomics\/wp-content\/uploads\/2020\/06\/Proteomics_17-l-2-300x200.jpg 300w, https:\/\/www.embl.org\/groups\/proteomics\/wp-content\/uploads\/2020\/06\/Proteomics_17-l-2-768x512.jpg 768w, https:\/\/www.embl.org\/groups\/proteomics\/wp-content\/uploads\/2020\/06\/Proteomics_17-l-2.jpg 1224w\" sizes=\"auto, (max-width: 1024px) 100vw, 1024px\" \/>  <div class=\"vf-card__content | vf-stack vf-stack--400\">\n      <h3 class=\"vf-card__heading\">\n              <a class=\"vf-card__link\" href=\"https:\/\/www.embl.org\/groups\/proteomics\/services\/\">\n      Overview of our Services and Fees       <svg aria-hidden=\"true\" class=\"vf-card__heading__icon | vf-icon vf-icon-arrow--inline-end\" width=\"1em\" height=\"1em\" xmlns=\"http:\/\/www.w3.org\/2000\/svg\">\n          <path d=\"M0 12c0 6.627 5.373 12 12 12s12-5.373 12-12S18.627 0 12 0C5.376.008.008 5.376 0 12zm13.707-5.209l4.5 4.5a1 1 0 010 1.414l-4.5 4.5a1 1 0 01-1.414-1.414l2.366-2.367a.25.25 0 00-.177-.424H6a1 1 0 010-2h8.482a.25.25 0 00.177-.427l-2.366-2.368a1 1 0 011.414-1.414z\" fill=\"currentColor\" fill-rule=\"nonzero\"><\/path>\n       <\/svg>\n        <\/a>\n          <\/h3>\n              <\/div>\n<\/article>\n\n\n<\/div>\n<\/div>\n<\/div>\n\n\n\n<hr class=\"vf-divider\">\n\n\n\n<div class=\"vf-grid | vf-grid__col-5\"><div><!--[vf\/content]-->\n<div class=\"vf-content\">\n<div class=\"vf-section-header | vf-u-margin__bottom--400\">\n  <h2 class=\"vf-section-header__heading\" \n    >\n  Techniques and approaches  <\/h2>\n  <\/div>\n\n\n<\/div>\n<\/div>\n\n\n<div class=\"vf-grid__col--span-3\"><!--[vf\/content]-->\n<div class=\"vf-content\">\n\n<p>The Proteomics Core Facility offers a range of techniques for the identification, characterization and quantification of proteins and proteomes. These include the following techniques and approaches, often used in combination:<\/p>\n\n\n\n<details  class=\"vf-details\" id=\"\"  >\n<summary class=\"vf-details--summary\">\nProtein Digestion and Labelling<\/summary>\n<div class=\"acf-innerblocks-container\">\n\n<ul class=\"wp-block-list\">\n<li>Protein digestion in-gel or in-solution, using a variety of proteases (trypsin, LysC, chymotrypsin, ArgC, GluC, AspN)<\/li>\n\n\n\n<li>In-gel acid hydrolysis for determination of N- \/C- termini (eg. for samples from limited proteolysis experiments)<\/li>\n\n\n\n<li>Peptide desalting using C18 cartridges <\/li>\n\n\n\n<li>Peptide labelling with stable isotopes (TMT) for relative protein quantification<\/li>\n<\/ul>\n\n<\/div>\n<\/details>\n\n\n\n<details  class=\"vf-details\" id=\"\"  >\n<summary class=\"vf-details--summary\">\nPeptide Enrichment<\/summary>\n<div class=\"acf-innerblocks-container\">\n\n<ul class=\"wp-block-list\">\n<li>Fe-IMAC-based enrichment of phosphorylated peptides<\/li>\n\n\n\n<li>Antibody-based enrichment of acetylated peptides<\/li>\n<\/ul>\n\n<\/div>\n<\/details>\n\n\n\n<details  class=\"vf-details\" id=\"\"  >\n<summary class=\"vf-details--summary\">\nPeptide Separation<\/summary>\n<div class=\"acf-innerblocks-container\">\n\n<ul class=\"wp-block-list\">\n<li>Offline high pH reverse phase chromatography, as a pre-fractionation step in peptide-based proteomics to enhance sensitivity<\/li>\n\n\n\n<li>Peptide-size exclusion chromatography for crosslinked peptides for non-enrichable crosslinker<\/li>\n<\/ul>\n\n<\/div>\n<\/details>\n\n\n\n<details  class=\"vf-details\" id=\"\"  >\n<summary class=\"vf-details--summary\">\nLC-MS\/MS<\/summary>\n<div class=\"acf-innerblocks-container\">\n\n<ul class=\"wp-block-list\">\n<li>Peptide separation by C18 nano-HPLC<\/li>\n\n\n\n<li>Peptide ionization by electrospray ionization (ESI)<\/li>\n\n\n\n<li>Peptide fragmentation by collision-induced dissociation (CID), higher-energy collisional dissociation (HCD) and electron-transfer dissociation (ETD)<\/li>\n\n\n\n<li>Data-dependent (DDA) and data-independent acquisition (DIA)<\/li>\n<\/ul>\n\n<\/div>\n<\/details>\n\n\n\n<details  class=\"vf-details\" id=\"\"  >\n<summary class=\"vf-details--summary\">\nData Analysis<\/summary>\n<div class=\"acf-innerblocks-container\">\n\n<ul class=\"wp-block-list\">\n<li>Data analysis with MS Fragger, DIA-NN, pLink3, Skyline or MaxQuant<\/li>\n\n\n\n<li>Statistical analysis<\/li>\n\n\n\n<li>Data visualization<\/li>\n\n\n\n<li>Data discussion<\/li>\n<\/ul>\n\n<\/div>\n<\/details>\n\n\n\n<div style=\"height:25px\" aria-hidden=\"true\" class=\"wp-block-spacer\"><\/div>\n\n\n\n<p>Please <a href=\"mailto:pcf@embl.de\" data-type=\"mailto\" data-id=\"mailto:pcf@embl.de\">contact us<\/a> for additional applications that may fit your needs.<\/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\n\n\n<style>\n.vf-content figure:not([class*=vf-]) {\ndisplay: block !important;\n}\n\n.wp-block-table table {\nwidth: 100% !important;\n}\n\n.wp-block-table table td:nth-child(2),\n.wp-block-table table th:nth-child(2) {\n  text-align: right !important;\n}\n\n<\/style>\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-14","page","type-page","status-publish","hentry"],"acf":[],"embl_taxonomy_terms":[],"_links":{"self":[{"href":"https:\/\/www.embl.org\/groups\/proteomics\/wp-json\/wp\/v2\/pages\/14","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.embl.org\/groups\/proteomics\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/www.embl.org\/groups\/proteomics\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/www.embl.org\/groups\/proteomics\/wp-json\/wp\/v2\/users\/3"}],"replies":[{"embeddable":true,"href":"https:\/\/www.embl.org\/groups\/proteomics\/wp-json\/wp\/v2\/comments?post=14"}],"version-history":[{"count":367,"href":"https:\/\/www.embl.org\/groups\/proteomics\/wp-json\/wp\/v2\/pages\/14\/revisions"}],"predecessor-version":[{"id":25491,"href":"https:\/\/www.embl.org\/groups\/proteomics\/wp-json\/wp\/v2\/pages\/14\/revisions\/25491"}],"wp:attachment":[{"href":"https:\/\/www.embl.org\/groups\/proteomics\/wp-json\/wp\/v2\/media?parent=14"}],"wp:term":[{"taxonomy":"embl_taxonomy","embeddable":true,"href":"https:\/\/www.embl.org\/groups\/proteomics\/wp-json\/wp\/v2\/embl_taxonomy?post=14"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}