{"id":1067,"date":"2024-04-25T20:54:36","date_gmt":"2024-04-25T20:54:36","guid":{"rendered":"https:\/\/www.embl.org\/about\/info\/planetary-biology\/?page_id=1067"},"modified":"2026-10-19T12:10:09","modified_gmt":"2026-10-19T12:10:09","slug":"standflow","status":"publish","type":"page","link":"https:\/\/www.embl.org\/about\/info\/planetary-biology\/projects\/standflow\/","title":{"rendered":"STANDFLOW"},"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<p class=\"vf-lede\">Towards a Standardised Data Management Workflow:<br \/>\na Focused Knowledge Exchange for the Planetary Biology Community.<\/p>\n<!--\/vf-lede-->\n\n\n\n<p class=\"wp-block-paragraph\"><\/p>\n\n\n\n<figure class=\"vf-figure wp-block-image size-large\"><img loading=\"lazy\" decoding=\"async\" width=\"1024\" height=\"852\" class=\"vf-figure__image\" src=\"https:\/\/www.embl.org\/about\/info\/planetary-biology\/wp-content\/uploads\/2026\/10\/STANDFLOW-front-image-1024x852.png\" alt=\"\" class=\"wp-image-137621\" srcset=\"https:\/\/www.embl.org\/about\/info\/planetary-biology\/wp-content\/uploads\/2026\/10\/STANDFLOW-front-image-1024x852.png 1024w, https:\/\/www.embl.org\/about\/info\/planetary-biology\/wp-content\/uploads\/2026\/10\/STANDFLOW-front-image-768x639.png 768w, https:\/\/www.embl.org\/about\/info\/planetary-biology\/wp-content\/uploads\/2026\/10\/STANDFLOW-front-image-300x250.png 300w, https:\/\/www.embl.org\/about\/info\/planetary-biology\/wp-content\/uploads\/2026\/10\/STANDFLOW-front-image.png 1280w\" sizes=\"auto, (max-width: 1024px) 100vw, 1024px\" \/><figcaption class=\"vf-figure__caption\">Credit: Daniela Ramos \/ EMBL. <\/figcaption><\/figure>\n\n\n\n<div style=\"height:39px\" aria-hidden=\"true\" class=\"wp-block-spacer\"><\/div>\n\n\n\n<p class=\"wp-block-paragraph\">Large, multimodal projects to understand biodiversity at the molecular level require a degree of coordination and data integration never previously realised. Using a manageable but complex data set including samples from TREC, this project will:<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">(A) Collaboratively define the data flow from sample to multimodal microscopy and -omics to open publication, through knowledge-exchange events and hackathons.<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">(B) Develop an efficient workflow to automate this data flow, using green compute principles and reducing time to publication.<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">(C) Create training resources supporting EMBL scientists and the wider research community to adopt the workflow and adapt it to their needs.<\/p>\n\n\n\n<div style=\"height:86px\" aria-hidden=\"true\" class=\"wp-block-spacer\"><\/div>\n\n\n\n<h3 class=\"wp-block-heading\">Data management and stewardship<\/h3>\n\n\n\n<p class=\"wp-block-paragraph\">BioImage Archive accessions:<\/p>\n\n\n\n<p class=\"wp-block-paragraph\"><a href=\"https:\/\/doi.org\/10.6019\/S-BIAD2258\">TRaversing European Coastlines (TREC) Live Plankton High-Content Fluorescence Microscopy Dataset<\/a><\/p>\n\n\n\n<p class=\"wp-block-paragraph\"><a href=\"https:\/\/doi.org\/10.6019\/S-BIAD3173\">Sweet and fatty symbionts: photosynthetic productivity and carbon storage boosted in microalgae within a host<\/a><\/p>\n\n\n\n<div style=\"height:39px\" aria-hidden=\"true\" class=\"wp-block-spacer\"><\/div>\n\n\n\n<h3 class=\"wp-block-heading\">FAIR imaging data training and consultation<\/h3>\n\n\n\n<a href=\"https:\/\/www.ebi.ac.uk\/training\/online\/courses\/imaging-data-management\/\" target=\"_blank\">\n    <button class=\"vf-button vf-button--primary\">\n        Imaging data management tutorial    <\/button>\n<\/a>\n<!--\/vf-button-->\n\n\n\n<p class=\"wp-block-paragraph\"><\/p>\n\n\n\n<p class=\"wp-block-paragraph\">We gave four editions of the REMBI workshop: <\/p>\n\n\n\n<ul class=\"wp-block-list\">\n<li><a href=\"https:\/\/www.embl.org\/about\/info\/course-and-conference-office\/events\/vem25-01\/\">EMBO Practical Course &#8211; Volume electron microscopy by automated serial SEM<\/a><\/li>\n\n\n\n<li><a href=\"https:\/\/grp-bio-it.embl-community.io\/hackathons\/\">3C-CoDash EMBL Event 2026<\/a><\/li>\n\n\n\n<li><a href=\"https:\/\/www.eurobioimaging.eu\/events\/image-data-community-days-2026\/\">Euro-BioImaging ERIC Image Data Community Days 2026<\/a><\/li>\n\n\n\n<li><a href=\"https:\/\/training.vib.be\/all-trainings\/recommended-metadata-biological-imaging-rembi-essentials-bioimaging-metadata\">VIB Leuven 2026<\/a><\/li>\n<\/ul>\n\n\n\n<p class=\"wp-block-paragraph\"><\/p>\n\n\n\n<p class=\"vf-u-margin__bottom--800 wp-block-paragraph\"><\/p>\n\n<\/div>\n<\/div>\n\n\n<div><!--[vf\/content]-->\n<div class=\"vf-content\">\n\n<h3 class=\"wp-block-heading\">Project lead <\/h3>\n\n\n<div class=\"vf-content-hub-html\" data-cache=\"69d94fa6\">\n      <!-- Generated by: http:\/\/content.embl.org\/api\/v1\/pattern.html?filter-content-type=person&amp;filter-field-contains%5Bfield_person_full_name%5D=schwab&amp;filter-fields-empty=field_person_visible_internally&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%2Cphones%2Corcid%5D=1&amp;limit=1&amp;pattern=vf-profile-inline -->\n                \n                            <article class=\"vf-profile vf-profile--very-easy vf-profile--medium vf-profile--inline\" data-embl-js-conditional-edit=\"79824\">\n              <img decoding=\"async\" class=\"vf-profile__image\" src=\"https:\/\/content.embl.org\/\/sites\/default\/files\/styles\/medium\/public\/default_images\/vf-icon--avatar.png?itok=HPxTrDkU\" alt=\"image of Yannick Schwab\" \/>\n      \n              <h3 class=\"vf-profile__title\">\n                      <a href=\"https:\/\/www.embl.org\/people\/person\/yannick-schwab\" class=\"vf-profile__link\">Yannick Schwab<\/a>\n                  <\/h3>\n      \n              <p class=\"vf-profile__job-title\">\n          Team Leader\n        <\/p>\n      \n      \n      \n      \n              \n              \n      \n            <a class=\"vf-text vf-text--body-r vf-link embl-conditional-edit\" rel=\"noopener noreferrer nofollow\" href=\"\/node\/79824\/79824\" target=\"_blank\">\n        Edit\n      <\/a>\n    <\/article>\n  <\/div>\n\n\n\n<div style=\"height:32px\" aria-hidden=\"true\" class=\"wp-block-spacer\"><\/div>\n\n\n\n<h3 class=\"wp-block-heading\">Imaging data manager for TREC<\/h3>\n\n\n<div class=\"vf-content-hub-html\" data-cache=\"51938a2f\">\n      <!-- Generated by: http:\/\/content.embl.org\/api\/v1\/pattern.html?filter-content-type=person&amp;filter-field-contains%5Bfield_person_full_name%5D=Alexandra%20Zakieva&amp;filter-fields-empty=field_person_visible_internally&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%2Cphones%2Corcid%5D=1&amp;limit=1&amp;pattern=vf-profile-inline -->\n                \n                            <article class=\"vf-profile vf-profile--very-easy vf-profile--medium vf-profile--inline\" data-embl-js-conditional-edit=\"182941\">\n              <img decoding=\"async\" class=\"vf-profile__image\" src=\"https:\/\/content.embl.org\/\/sites\/default\/files\/styles\/medium\/public\/default_images\/vf-icon--avatar.png?itok=HPxTrDkU\" alt=\"image of Alexandra Zakieva\" \/>\n      \n              <h3 class=\"vf-profile__title\">\n                      <a href=\"https:\/\/www.embl.org\/people\/person\/alexandra-zakieva\" class=\"vf-profile__link\">Alexandra Zakieva<\/a>\n                  <\/h3>\n      \n              <p class=\"vf-profile__job-title\">\n          Research Fellow (ARISE)\n        <\/p>\n      \n      \n      \n      \n      \n      \n            <a class=\"vf-text vf-text--body-r vf-link embl-conditional-edit\" rel=\"noopener noreferrer nofollow\" href=\"\/node\/182941\/182941\" target=\"_blank\">\n        Edit\n      <\/a>\n    <\/article>\n  <\/div>\n\n\n\n<div style=\"height:28px\" aria-hidden=\"true\" class=\"wp-block-spacer\"><\/div>\n\n\n\n<h3 class=\"wp-block-heading\">Partners<br><a href=\"https:\/\/www.ebi.ac.uk\/training\/\">EMBL-EBI Training<\/a><br><a href=\"https:\/\/www.embl.org\/groups\/dey\/\">Dey group<\/a><br><a href=\"https:\/\/www.embl.org\/groups\/bork\/\">Bork group<\/a><\/h3>\n\n\n\n<div style=\"height:28px\" aria-hidden=\"true\" class=\"wp-block-spacer\"><\/div>\n\n\n\n<h3 class=\"wp-block-heading\">In collaboration with<br><a href=\"https:\/\/www.embl.org\/about\/info\/data-science-centre\/\">Data Science Centre<\/a><br><a href=\"https:\/\/www.ebi.ac.uk\/bioimage-archive\/\">BioImage Archive<\/a><br><a href=\"https:\/\/www.embl.org\/about\/info\/trec\/\">TREC<\/a><\/h3>\n\n\n\n<div style=\"height:32px\" aria-hidden=\"true\" class=\"wp-block-spacer\"><\/div>\n\n\n\n<h3 class=\"wp-block-heading\">Project contact email:  <a href=\"mailto:standflow@embl.de\">standflow@embl.de<\/a><\/h3>\n\n\n\n<h4 class=\"wp-block-heading\">Do you want a REMBI workshop for your community? <br>Do you need consultation to submit your Planetary Biology data to BioImage Archive? <br>Contact us!<\/h4>\n\n<\/div>\n<\/div>\n<\/div>\n","protected":false},"excerpt":{"rendered":"","protected":false},"author":2,"featured_media":0,"parent":714,"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-1067","page","type-page","status-publish","hentry"],"acf":[],"embl_taxonomy_terms":[],"_links":{"self":[{"href":"https:\/\/www.embl.org\/about\/info\/planetary-biology\/wp-json\/wp\/v2\/pages\/1067","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.embl.org\/about\/info\/planetary-biology\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/www.embl.org\/about\/info\/planetary-biology\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/www.embl.org\/about\/info\/planetary-biology\/wp-json\/wp\/v2\/users\/2"}],"replies":[{"embeddable":true,"href":"https:\/\/www.embl.org\/about\/info\/planetary-biology\/wp-json\/wp\/v2\/comments?post=1067"}],"version-history":[{"count":21,"href":"https:\/\/www.embl.org\/about\/info\/planetary-biology\/wp-json\/wp\/v2\/pages\/1067\/revisions"}],"predecessor-version":[{"id":137701,"href":"https:\/\/www.embl.org\/about\/info\/planetary-biology\/wp-json\/wp\/v2\/pages\/1067\/revisions\/137701"}],"up":[{"embeddable":true,"href":"https:\/\/www.embl.org\/about\/info\/planetary-biology\/wp-json\/wp\/v2\/pages\/714"}],"wp:attachment":[{"href":"https:\/\/www.embl.org\/about\/info\/planetary-biology\/wp-json\/wp\/v2\/media?parent=1067"}],"wp:term":[{"taxonomy":"embl_taxonomy","embeddable":true,"href":"https:\/\/www.embl.org\/about\/info\/planetary-biology\/wp-json\/wp\/v2\/embl_taxonomy?post=1067"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}