{"id":477,"date":"2023-07-17T16:37:45","date_gmt":"2023-07-17T14:37:45","guid":{"rendered":"https:\/\/wp.unil.ch\/paf\/?page_id=477"},"modified":"2025-02-03T17:13:05","modified_gmt":"2025-02-03T16:13:05","slug":"sample-submission","status":"publish","type":"page","link":"https:\/\/wp.unil.ch\/paf\/sample-submission\/","title":{"rendered":"Sample submission"},"content":{"rendered":"\n<p>Please go through the <strong>CHECKLIST <\/strong>below.<\/p>\n\n\n\n<h2 class=\"wp-block-heading\">Very (very) Important Points \u2714<\/h2>\n\n\n\n<div class=\"wp-block-columns is-layout-flex wp-container-core-columns-is-layout-9d6595d7 wp-block-columns-is-layout-flex\">\n<div class=\"wp-block-column is-vertically-aligned-center is-layout-flow wp-block-column-is-layout-flow\" style=\"flex-basis:15%\"><div class=\"wp-block-image\">\n<figure class=\"aligncenter size-full is-resized\"><img alt=\"\" decoding=\"async\" src=\"https:\/\/wp.unil.ch\/paf\/files\/2024\/10\/VIP_-iconsmind.png\" alt=\"\" class=\"wp-image-1926\" style=\"object-fit:cover;width:120px;height:120px\" \/><\/figure>\n<\/div><\/div>\n\n\n\n<div class=\"wp-block-column is-layout-flow wp-block-column-is-layout-flow\" style=\"flex-basis:80%\">\n<p>Failure to follow these guidelines can significantly impact results. For instance, unwashed cells may retain high levels of albumin from the culture media, which can drastically reduce proteome coverage.<\/p>\n\n\n\n<p><mark style=\"background-color:#f1f1f1\" class=\"has-inline-color has-primary-color\">Samples are <\/mark><mark style=\"background-color:#f1f1f1\" class=\"has-inline-color has-accent-color\">ONLY <\/mark><mark style=\"background-color:#f1f1f1\" class=\"has-inline-color has-primary-color\">accepted in <\/mark><mark style=\"background-color:#f1f1f1\" class=\"has-inline-color has-accent-color\">1.5 ml microtubes<\/mark>. Other tube formats may be considered upon special arrangements.<\/p>\n\n\n\n<p><mark style=\"background-color:#f1f1f1\" class=\"has-inline-color has-accent-color\">Tubes MUST be numbered in sequential<\/mark><strong> <\/strong><mark style=\"background-color:#f1f1f1\" class=\"has-inline-color has-accent-color\">order<\/mark> :<strong> <\/strong>1, 2, 3 &#8230; <\/p>\n<\/div>\n<\/div>\n\n\n\n<h2 class=\"wp-block-heading\">Discussion \u2714<\/h2>\n\n\n\n<div class=\"wp-block-columns is-layout-flex wp-container-core-columns-is-layout-9d6595d7 wp-block-columns-is-layout-flex\">\n<div class=\"wp-block-column is-vertically-aligned-center is-layout-flow wp-block-column-is-layout-flow\" style=\"flex-basis:15%\"><div class=\"wp-block-image\">\n<figure class=\"aligncenter size-full is-resized\"><img alt=\"\" decoding=\"async\" src=\"https:\/\/wp.unil.ch\/paf\/files\/2024\/10\/discussion_-iconsmind.png\" alt=\"\" class=\"wp-image-1928\" style=\"object-fit:cover;width:120px;height:120px\" \/><\/figure>\n<\/div><\/div>\n\n\n\n<div class=\"wp-block-column is-layout-flow wp-block-column-is-layout-flow\" style=\"flex-basis:80%\">\n<p><mark style=\"background-color:#f1f1f1\" class=\"has-inline-color has-accent-color\">Preliminary discussion<\/mark> <mark style=\"background-color:#f1f1f1\" class=\"has-inline-color has-accent-color\">BEFORE<\/mark><strong> <\/strong>sample preparation is highly beneficial and increases chances of sucess. For complex and large-scale projects, this step is mandatory.<\/p>\n\n\n\n<p><mark style=\"background-color:#f1f1f1\" class=\"has-inline-color has-accent-color\">Pilot experiments<\/mark><mark style=\"background-color:#f1f1f1\" class=\"has-inline-color\"> <\/mark>are essential for assessing feasibility and optimizing protocols. They are typically quick to conduct and cost-effective.<\/p>\n\n\n\n<p><mark style=\"background-color:#f1f1f1\" class=\"has-inline-color has-accent-color\">Group leaders<\/mark>, if your project includes key proteomic experiments, please contact us during grant preparation. We can offer expert advice, provide a letter of support and assist with budget planning.<\/p>\n<\/div>\n<\/div>\n\n\n\n<h2 class=\"wp-block-heading\">Sample preparation \u2714<\/h2>\n\n\n\n<div class=\"wp-block-columns is-layout-flex wp-container-core-columns-is-layout-9d6595d7 wp-block-columns-is-layout-flex\">\n<div class=\"wp-block-column is-layout-flow wp-block-column-is-layout-flow\" style=\"flex-basis:15%\"><div class=\"wp-block-image\">\n<figure class=\"aligncenter size-full is-resized\"><img alt=\"\" decoding=\"async\" src=\"https:\/\/wp.unil.ch\/paf\/files\/2024\/10\/protein_Smashicons.png\" alt=\"\" class=\"wp-image-1925\" style=\"object-fit:cover;width:120px;height:120px\" \/><\/figure>\n<\/div><\/div>\n\n\n\n<div class=\"wp-block-column is-layout-flow wp-block-column-is-layout-flow\" style=\"flex-basis:28.3%\">\n<details class=\"wp-block-details has-background-background-color has-background is-layout-flow wp-block-details-is-layout-flow\"><summary>Cell pellets<\/summary>\n<ul class=\"wp-block-list\">\n<li>Wash pellet 2x with excess buffer (PBS)<\/li>\n\n\n\n<li>Spin &amp; remove as much liquid as possible<\/li>\n\n\n\n<li>Freeze at -20\u00b0C or -80\u00b0C<\/li>\n\n\n\n<li>Specify the cell type and the approximate cell count on the submission form <\/li>\n<\/ul>\n<\/details>\n\n\n\n<details class=\"wp-block-details is-layout-flow wp-block-details-is-layout-flow\"><summary>Tissues<\/summary>\n<ul class=\"wp-block-list\">\n<li>Wash the tissue once with cold PBS or Tris buffer.<\/li>\n\n\n\n<li>Remove the liquid<\/li>\n\n\n\n<li>Weigh the tissue<\/li>\n\n\n\n<li>Freeze at -80\u00b0C<\/li>\n\n\n\n<li>Indicate the weight of the tissue piece on the submission form<\/li>\n<\/ul>\n<\/details>\n<\/div>\n\n\n\n<div class=\"wp-block-column is-layout-flow wp-block-column-is-layout-flow\" style=\"flex-basis:28.3%\">\n<details class=\"wp-block-details has-background-background-color has-background is-layout-flow wp-block-details-is-layout-flow\"><summary>Protein solution<\/summary>\n<p>Indicate on <em>submission form<\/em> :<\/p>\n\n\n\n<ul class=\"wp-block-list\">\n<li>The <strong>complete and exact composition of the buffer\/solvent<\/strong>, including any detergent (even trace amounts), <strong>salts, pH<\/strong><\/li>\n\n\n\n<li>An estimate of protein concentration and the method used for its measurment<\/li>\n<\/ul>\n<\/details>\n\n\n\n<details class=\"wp-block-details has-background-background-color has-background is-layout-flow wp-block-details-is-layout-flow\"><summary>Affinity beads<\/summary>\n<ul class=\"wp-block-list\">\n<li>Wash once or twice with excess PBS or Tris buffer.<\/li>\n\n\n\n<li>Remove as much liquid as possible. <\/li>\n\n\n\n<li>Freeze at -20\u00b0C.<\/li>\n\n\n\n<li>Specify on the submission form: <strong>approximate volume <\/strong>of <em>pelleted<\/em> beads AND any residual liquid. If residual liquid is present, specify its <strong>composition <\/strong>\/<strong>Type of beads used<\/strong> (agarose, magnetic), ideally including the product number \/Expected <strong>amount and type of known protein<\/strong> present on the beads (antibody, GFP-trap &#8230;)<\/li>\n<\/ul>\n<\/details>\n<\/div>\n\n\n\n<div class=\"wp-block-column is-layout-flow wp-block-column-is-layout-flow\" style=\"flex-basis:25%\">\n<details class=\"wp-block-details is-layout-flow wp-block-details-is-layout-flow\"><summary>Polyacrylamide gel bands<\/summary>\n<p><\/p>\n\n\n\n<ul class=\"wp-block-list\">\n<li>Stain the gel with MS-compatible Coomassie blue or Silver stain<\/li>\n\n\n\n<li>Carefully cut the desired bands using a clean scalpel under laminar flow<\/li>\n\n\n\n<li>Transfer  the excised band(s) to 1.5ml microtube(s)<\/li>\n\n\n\n<li>Freeze at -20\u00b0C <\/li>\n\n\n\n<li>Complete the submission form indicating the approximate MW on gel  or attach an image of the gel with MW marker <\/li>\n<\/ul>\n<\/details>\n<\/div>\n<\/div>\n\n\n\n<h2 class=\"wp-block-heading\">Sample submission and delivery \u2714<\/h2>\n\n\n\n<div class=\"wp-block-columns is-layout-flex wp-container-core-columns-is-layout-9d6595d7 wp-block-columns-is-layout-flex\">\n<div class=\"wp-block-column is-vertically-aligned-center is-layout-flow wp-block-column-is-layout-flow\" style=\"flex-basis:15%\">\n<figure class=\"wp-block-image size-full is-resized\"><img alt=\"\" decoding=\"async\" src=\"https:\/\/wp.unil.ch\/paf\/files\/2024\/10\/courier_Freepik.png\" alt=\"\" class=\"wp-image-1927\" style=\"object-fit:cover;width:120px;height:120px\" \/><\/figure>\n<\/div>\n\n\n\n<div class=\"wp-block-column is-layout-flow wp-block-column-is-layout-flow\" style=\"flex-basis:80%\">\n<ul class=\"wp-block-list\">\n<li>Clearly label the tubes with NUMBERS (1,2,3 &#8230; )<\/li>\n\n\n\n<li>Store at -20\u00b0C or -80\u00b0C.<\/li>\n\n\n\n<li>Fill-in the on-line <strong>submission form (see below)<\/strong> and attach any relevant files. <\/li>\n\n\n\n<li>Drop off or ship the samples to the facility, preferably on dry ice.<\/li>\n\n\n\n<li>Please <a href=\"https:\/\/wp.unil.ch\/paf\/wp-admin\/post.php?post=2274&amp;action=edit\" data-type=\"page\" data-id=\"537\">contact us<\/a> in advance to confirm your visit or shipment.<\/li>\n<\/ul>\n<\/div>\n<\/div>\n\n\n\n<p class=\"has-normal-font-size\">If everythig is clear, you can proceed with the <a href=\"https:\/\/paf-sample-submission.unil.ch\" data-type=\"link\" data-id=\"https:\/\/paf-sample-submission.unil.ch\">online sample submission<\/a><\/p>\n\n\n\n<p><\/p>\n","protected":false},"excerpt":{"rendered":"<p>Please go through the CHECKLIST below. Very (very) Important Points \u2714 Failure to follow these guidelines can significantly impact results. For instance, unwashed cells may retain high levels&hellip;<\/p>\n","protected":false},"author":1002530,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"template-full-width.php","meta":{"_seopress_robots_primary_cat":"","_seopress_titles_title":"","_seopress_titles_desc":"","_seopress_robots_index":"","footnotes":""},"class_list":["post-477","page","type-page","status-publish","has-post-thumbnail"],"_links":{"self":[{"href":"https:\/\/wp.unil.ch\/paf\/wp-json\/wp\/v2\/pages\/477","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/wp.unil.ch\/paf\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/wp.unil.ch\/paf\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/wp.unil.ch\/paf\/wp-json\/wp\/v2\/users\/1002530"}],"replies":[{"embeddable":true,"href":"https:\/\/wp.unil.ch\/paf\/wp-json\/wp\/v2\/comments?post=477"}],"version-history":[{"count":5,"href":"https:\/\/wp.unil.ch\/paf\/wp-json\/wp\/v2\/pages\/477\/revisions"}],"predecessor-version":[{"id":2321,"href":"https:\/\/wp.unil.ch\/paf\/wp-json\/wp\/v2\/pages\/477\/revisions\/2321"}],"wp:attachment":[{"href":"https:\/\/wp.unil.ch\/paf\/wp-json\/wp\/v2\/media?parent=477"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}