{"id":325,"date":"2025-07-17T14:46:49","date_gmt":"2025-07-17T11:46:49","guid":{"rendered":"https:\/\/sisu.ut.ee\/sysage\/?p=325"},"modified":"2025-07-17T14:46:49","modified_gmt":"2025-07-17T11:46:49","slug":"building-computational-skills-in-r-with-our-partners-from-institut-pasteur","status":"publish","type":"post","link":"https:\/\/sisu.ut.ee\/sysage\/building-computational-skills-in-r-with-our-partners-from-institut-pasteur\/","title":{"rendered":"Building Computational Skills in R\u00a0with our partners from Institut Pasteur"},"content":{"rendered":"<p><\/p>\n\n\n\n<p>From 17\u201320 June 2025, more than 15 early-career researchers gathered in Tartu for a four-day R course on immunology data analysis, organized as part of the SysAge project in collaboration with Institut Pasteur. Hosted at the University of Tartu\u2019s Biomedicum, the workshop was designed to help PhD and Master\u2019s students strengthen their ability to work with high-dimensional biological datasets using R.\u00a0<\/p>\n\n\n\n<figure class=\"wp-block-image aligncenter size-large is-resized\"><img loading=\"lazy\" decoding=\"async\" width=\"1024\" height=\"823\" src=\"https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/ed-1024x823.jpg\" alt=\"\" class=\"wp-image-326\" style=\"width:652px;height:auto\" srcset=\"https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/ed-1024x823.jpg 1024w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/ed-300x241.jpg 300w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/ed-768x618.jpg 768w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/ed-1536x1235.jpg 1536w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/ed-2048x1647.jpg 2048w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/ed-1920x1544.jpg 1920w\" sizes=\"auto, (max-width: 1024px) 100vw, 1024px\"><figcaption class=\"wp-element-caption\">Participants of the R course<\/figcaption><\/figure>\n\n\n\n<p>The course offered a deep dive into essential data analysis techniques commonly used in systems immunology. Participants explored everything from data wrangling with tidyverse and visualization using ggplot2 to principal component analysis (PCA), clustering (including workflows combining R and Python), linear models, and statistical testing. In addition to working with real-world immunological data, participants also learned how to simulate datasets, a valuable technique when testing out code or developing workflows prior to real data availability.\u00a0<\/p>\n\n\n\n<p>Sessions were led by experienced researchers from Institut Pasteur, all of whom are closely involved in the Milieu Int\u00e9rieur project,<strong> <\/strong>an international initiative aimed at mapping healthy immune variability.\u00a0<\/p>\n\n\n\n<p>Each day began with an open morning seminar, where the instructors presented their research and demonstrated how computational tools are used to investigate immune variation and disease mechanisms. The topics included:\u00a0<\/p>\n\n\n\n<ul class=\"wp-block-list\">\n<li>Immune variability and healthy donor cohorts \u2013 <em>Darragh Duffy<\/em>\u00a0<\/li>\n<\/ul>\n\n\n\n<ul class=\"wp-block-list\">\n<li>Comparing immune phenotypes across populations \u2013 <em>Etienne Villain<\/em>\u00a0<\/li>\n<\/ul>\n\n\n\n<ul class=\"wp-block-list\">\n<li>Transcriptional regulation and socioeconomic influences \u2013 <em>Anthony Bertrand<\/em>\u00a0<\/li>\n<\/ul>\n\n\n\n<p>These talks provided valuable scientific context for the technical content of the course, offering participants a complete picture of how data analysis fits into contemporary immunology research.\u00a0\u00a0<\/p>\n\n\n\n<figure class=\"wp-block-gallery has-nested-images columns-default is-cropped wp-block-gallery-1 is-layout-flex wp-block-gallery-is-layout-flex\">\n<figure class=\"wp-block-image size-large\"><img loading=\"lazy\" decoding=\"async\" width=\"1024\" height=\"911\" data-id=\"330\" src=\"https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250620_073755034.MP_ed-1024x911.jpg\" alt=\"\" class=\"wp-image-330\" srcset=\"https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250620_073755034.MP_ed-1024x911.jpg 1024w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250620_073755034.MP_ed-300x267.jpg 300w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250620_073755034.MP_ed-768x683.jpg 768w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250620_073755034.MP_ed-1536x1367.jpg 1536w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250620_073755034.MP_ed-2048x1822.jpg 2048w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250620_073755034.MP_ed-1920x1708.jpg 1920w\" sizes=\"auto, (max-width: 1024px) 100vw, 1024px\"><\/figure>\n\n\n\n<figure class=\"wp-block-image size-large\"><img loading=\"lazy\" decoding=\"async\" width=\"983\" height=\"1024\" data-id=\"328\" src=\"https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250618_095914436_ed-983x1024.jpg\" alt=\"\" class=\"wp-image-328\" srcset=\"https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250618_095914436_ed-983x1024.jpg 983w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250618_095914436_ed-288x300.jpg 288w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250618_095914436_ed-768x800.jpg 768w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250618_095914436_ed-1475x1536.jpg 1475w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250618_095914436_ed-1967x2048.jpg 1967w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250618_095914436_ed-1920x1999.jpg 1920w\" sizes=\"auto, (max-width: 983px) 100vw, 983px\"><\/figure>\n\n\n\n<figure class=\"wp-block-image size-large\"><img loading=\"lazy\" decoding=\"async\" width=\"1024\" height=\"964\" data-id=\"327\" src=\"https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250618_060021262_ed-1024x964.jpg\" alt=\"\" class=\"wp-image-327\" srcset=\"https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250618_060021262_ed-1024x964.jpg 1024w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250618_060021262_ed-300x283.jpg 300w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250618_060021262_ed-768x723.jpg 768w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250618_060021262_ed-1536x1447.jpg 1536w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250618_060021262_ed-2048x1929.jpg 2048w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250618_060021262_ed-1920x1808.jpg 1920w\" sizes=\"auto, (max-width: 1024px) 100vw, 1024px\"><\/figure>\n\n\n\n<figure class=\"wp-block-image size-large\"><img loading=\"lazy\" decoding=\"async\" width=\"1002\" height=\"1024\" data-id=\"329\" src=\"https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250617_112612934_ed.MP_-1002x1024.jpg\" alt=\"\" class=\"wp-image-329\" srcset=\"https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250617_112612934_ed.MP_-1002x1024.jpg 1002w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250617_112612934_ed.MP_-293x300.jpg 293w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250617_112612934_ed.MP_-768x785.jpg 768w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250617_112612934_ed.MP_-1503x1536.jpg 1503w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250617_112612934_ed.MP_-2004x2048.jpg 2004w, https:\/\/sisu.ut.ee\/wp-content\/uploads\/sites\/784\/PXL_20250617_112612934_ed.MP_-1920x1963.jpg 1920w\" sizes=\"auto, (max-width: 1002px) 100vw, 1002px\"><\/figure>\n<\/figure>\n\n\n\n<p>What truly made the course stand out was the dedication and approachability of the Institut Pasteur teaching team: Darragh Duffy, Etienne Villain, Vincent Rouilly, and Anthony Bertrand. The instructors delivered each topic with clarity and relevance, seamlessly integrating theory with practical coding exercises.\u00a0 Participants were encouraged to ask questions throughout the sessions, and the instructors provided individual guidance, helped troubleshoot challenges, and supported more conceptual understanding. Their commitment ensured that all students, regardless of starting level, were engaged and supported.\u00a0<\/p>\n\n\n\n<p>Beyond lectures and hands-on sessions, the course also created space for informal connections. A relaxing boat trip on the<strong> <\/strong>Emaj\u00f5gi River gave participants and instructors a chance to unwind, enjoy Tartu\u2019s scenic summer views and sauna, and to continue scientific conversations in a more social atmosphere.\u00a0<\/p>\n\n\n\n<p>In addition to his teaching role, Darragh Duffy, a key SysAge partner, also delivered a seminar at the University of Tartu\u2019s Institute of Genomics. He was given a guided tour of the Estonian Biobank (Geenivaramu), where he learned more about Estonia\u2019s leading role in population-based biobanking and genomic research.\u00a0<\/p>\n\n\n\n<p>This course fostered both learning and collaboration both of which are core goals of the SysAge project. We are deeply grateful to the team from Institut Pasteur for their outstanding teaching, and to all participants for their enthusiasm, focus, and curiosity throughout the week.\u00a0We hope the skills and relationships built during this training will spark new research and long-term collaborations across disciplines and borders. Stay tuned for more training activities and events as SysAge continues to build excellence in systems immunology and healthy aging research.\u00a0<\/p>\n\n\n\n<p><\/p>\n","protected":false},"excerpt":{"rendered":"<p>From 17\u201320 June 2025, more than 15 early-career researchers gathered in Tartu for a four-day R course on immunology data analysis, organized as part of the SysAge project in collaboration with Institut Pasteur. Hosted at the University of Tartu\u2019s Biomedicum, &#8230;<\/p>\n","protected":false},"author":605,"featured_media":331,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"_acf_changed":false,"inline_featured_image":false,"footnotes":""},"categories":[21],"tags":[5,10,24,25,8],"class_list":["post-325","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-event","tag-immunology","tag-institut-pasteur","tag-r","tag-r-studio","tag-university-of-tartu"],"acf":[],"_links":{"self":[{"href":"https:\/\/sisu.ut.ee\/sysage\/wp-json\/wp\/v2\/posts\/325","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/sisu.ut.ee\/sysage\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/sisu.ut.ee\/sysage\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/sisu.ut.ee\/sysage\/wp-json\/wp\/v2\/users\/605"}],"replies":[{"embeddable":true,"href":"https:\/\/sisu.ut.ee\/sysage\/wp-json\/wp\/v2\/comments?post=325"}],"version-history":[{"count":1,"href":"https:\/\/sisu.ut.ee\/sysage\/wp-json\/wp\/v2\/posts\/325\/revisions"}],"predecessor-version":[{"id":332,"href":"https:\/\/sisu.ut.ee\/sysage\/wp-json\/wp\/v2\/posts\/325\/revisions\/332"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/sisu.ut.ee\/sysage\/wp-json\/wp\/v2\/media\/331"}],"wp:attachment":[{"href":"https:\/\/sisu.ut.ee\/sysage\/wp-json\/wp\/v2\/media?parent=325"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/sisu.ut.ee\/sysage\/wp-json\/wp\/v2\/categories?post=325"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/sisu.ut.ee\/sysage\/wp-json\/wp\/v2\/tags?post=325"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}