{"id":550,"date":"2021-06-23T16:32:08","date_gmt":"2021-06-23T16:32:15","guid":{"rendered":"http:\/\/www.ebi.ac.uk\/training\/materials\/proteomics-bioinformatics-temp-temp\/pre-course-homework\/distributed-quantitative-proteomics-tools\/"},"modified":"2026-08-26T14:03:54","modified_gmt":"2026-08-26T14:03:54","slug":"distributed-quantitative-proteomics-tools","status":"publish","type":"page","link":"https:\/\/www.ebi.ac.uk\/training\/materials\/proteomics-bioinformatics-materials\/protein-quantification\/distributed-quantitative-proteomics-tools\/","title":{"rendered":"Distributed and Large-Scale Quantitative Proteomics Tools"},"content":{"rendered":"\n<p class=\"wp-block-paragraph\"><strong>Trainers:<\/strong> Yasset Perez-Riverol<\/p>\n\n\n\n<p class=\"wp-block-paragraph\"><strong>Overview: <\/strong>This session will introduce tools for quantitative proteomics, particularly quantms: A cloud-based solution for quantitative proteomics analysis, which covers:<\/p>\n\n\n\n<ul class=\"wp-block-list\">\n<li>DDA identification workflow<\/li>\n\n\n\n<li>Quantitative analysis TMT and LFQ<\/li>\n\n\n\n<li>Quality control using pmultiqc<\/li>\n\n\n\n<li>Downstream analysis with Msstats<\/li>\n<\/ul>\n\n\n\n<p class=\"wp-block-paragraph\"><strong>Learning outcomes<\/strong><\/p>\n\n\n\n<p class=\"wp-block-paragraph\">By the end of this session you will be able to:<\/p>\n\n\n\n<ul class=\"wp-block-list\">\n<li>Find tools for your quantitative proteomics analyses<\/li>\n\n\n\n<li>Use OpenMS for distributed analyses of data<\/li>\n\n\n\n<li>Use NextFlow, mainly proteomics LFQ, for cloud-based data analysis<\/li>\n<\/ul>\n\n\n\n<p class=\"wp-block-paragraph\"><strong>Materials:<\/strong><\/p>\n\n\n\n<ul class=\"wp-block-list\">\n<li>2026 edition <a href=\"https:\/\/ftp.ebi.ac.uk\/pub\/training\/2026\/Proteomics_Bioinformatics_2026\/quantms-openms-dev-meeting-extended.pptx\">Presentation slides<\/a><\/li>\n<\/ul>\n\n\n\n<p class=\"wp-block-paragraph\"><\/p>\n\n\n\n<ul class=\"wp-block-list\">\n<li>2021 edition recorded Lecture:<\/li>\n<\/ul>\n\n\n\n<iframe loading=\"lazy\" src=\"https:\/\/embl-ebi.cloud.panopto.eu\/Panopto\/Pages\/Embed.aspx?id=221930ae-c52a-48b8-ba4c-ad5000acd39b&amp;autoplay=false&amp;offerviewer=true&amp;showtitle=true&amp;showbrand=false&amp;start=0&amp;interactivity=all\" height=\"405\" width=\"720\" style=\"border: 1px solid #464646;\" allowfullscreen=\"\" allow=\"autoplay\"><\/iframe>\n","protected":false},"excerpt":{"rendered":"<p>Trainers: Yasset Perez-Riverol Overview: This session will introduce tools for quantitative proteomics, particularly quantms: A cloud-based solution for quantitative proteomics analysis, which covers: Learning outcomes By the end of this session you will be able to: Materials:<\/p>\n","protected":false},"author":1,"featured_media":0,"parent":1563,"menu_order":1,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-550","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/proteomics-bioinformatics-materials\/wp-json\/wp\/v2\/pages\/550","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/proteomics-bioinformatics-materials\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/proteomics-bioinformatics-materials\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/proteomics-bioinformatics-materials\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/proteomics-bioinformatics-materials\/wp-json\/wp\/v2\/comments?post=550"}],"version-history":[{"count":13,"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/proteomics-bioinformatics-materials\/wp-json\/wp\/v2\/pages\/550\/revisions"}],"predecessor-version":[{"id":2253,"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/proteomics-bioinformatics-materials\/wp-json\/wp\/v2\/pages\/550\/revisions\/2253"}],"up":[{"embeddable":true,"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/proteomics-bioinformatics-materials\/wp-json\/wp\/v2\/pages\/1563"}],"wp:attachment":[{"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/proteomics-bioinformatics-materials\/wp-json\/wp\/v2\/media?parent=550"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}