{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,17]],"date-time":"2026-07-17T07:35:48Z","timestamp":1784273748572,"version":"3.55.0"},"reference-count":19,"publisher":"Oxford University Press (OUP)","issue":"1","license":[{"start":{"date-parts":[[2024,12,2]],"date-time":"2024-12-02T00:00:00Z","timestamp":1733097600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"LifeCycle","award":["733206"],"award-info":[{"award-number":["733206"]}]},{"name":"EUCAN-Connect","award":["824989"],"award-info":[{"award-number":["824989"]}]},{"name":"LongITools","award":["874739"],"award-info":[{"award-number":["874739"]}]},{"name":"ATHLETE","award":["874583"],"award-info":[{"award-number":["874583"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024,12,26]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>Extensive human health data from cohort studies, national registries, and biobanks can reveal lifecourse risk factors impacting health. Combining these sources offers increased statistical power, rare outcome detection, replication of findings, and extended study periods. Traditionally, this required data transfer to a central location or separate partner analyses with pooled summary statistics, posing ethical, legal, and time constraints. Federated analysis\u2014which involves remote data analysis without sharing individual-level data\u2014is a promising alternative. One promising solution is DataSHIELD (https:\/\/datashield.org\/), an open-source R based implementation. To enable federated analysis, data owners need a user-friendly way to install the federated infrastructure and manage users and data. Here, we present MOLGENIS Armadillo: a lightweight server for federated analysis solutions such as DataSHIELD.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>Armadillo is implemented as a collection of three packages freely available under the open source licence LGPLv3: two R packages downloadable from the Comprehensive R Archive Network (CRAN) (\u201cMolgenisArmadillo\u201d and \u201cDSMolgenisArmdillo\u201d) and one Java application (\u201cArmadilloService\u201d) as jar and docker images via Github (https:\/\/github.com\/molgenis\/molgenis-service-armadillo).<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btae726","type":"journal-article","created":{"date-parts":[[2024,12,14]],"date-time":"2024-12-14T11:54:52Z","timestamp":1734177292000},"source":"Crossref","is-referenced-by-count":5,"title":["MOLGENIS Armadillo: a lightweight server for federated analysis using DataSHIELD"],"prefix":"10.1093","volume":"41","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-7682-5645","authenticated-orcid":false,"given":"Tim","family":"Cadman","sequence":"first","affiliation":[{"name":"Department of Genetics, Genomics Coordination Center, University Medical Center Groningen, University of Groningen , Groningen, 9700 RB,","place":["The Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0400-0468","authenticated-orcid":false,"given":"Mariska K","family":"Slofstra","sequence":"additional","affiliation":[{"name":"Department of Genetics, Genomics Coordination Center, University Medical Center Groningen, University of Groningen , Groningen, 9700 RB,","place":["The Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1919-6547","authenticated-orcid":false,"given":"Marije A","family":"van der Geest","sequence":"additional","affiliation":[{"name":"Department of Genetics, Genomics Coordination Center, University Medical Center Groningen, University of Groningen , Groningen, 9700 RB,","place":["The Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8908-2441","authenticated-orcid":false,"given":"Demetris","family":"Avraam","sequence":"additional","affiliation":[{"name":"Department of Public Health, University of Copenhagen , Copenhagen, 1353,","place":["Denmark"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tom R P","family":"Bishop","sequence":"additional","affiliation":[{"name":"Medical Research Council Epidemiology Unit, University of Cambridge School of Clinical Medicine , Cambridge, CB2 0QQ,","place":["United Kingdom"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tommy","family":"de Boer","sequence":"additional","affiliation":[{"name":"Department of Genetics, Genomics Coordination Center, University Medical Center Groningen, University of Groningen , Groningen, 9700 RB,","place":["The Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Liesbeth","family":"Duijts","sequence":"additional","affiliation":[{"name":"Department of Neonatal and Pediatric Intensive Care, Division of Neonatology, Erasmus MC, University Medical Center Rotterdam , Rotterdam, 3015 GD,","place":["The Netherlands"]},{"name":"Department of Pediatrics, Erasmus MC, University Medical Center Rotterdam , Rotterdam, 3015 GD,","place":["The Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sido","family":"Haakma","sequence":"additional","affiliation":[{"name":"Department of Genetics, Genomics Coordination Center, University Medical Center Groningen, University of Groningen , Groningen, 9700 RB,","place":["The Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2744-0017","authenticated-orcid":false,"given":"Eleanor","family":"Hyde","sequence":"additional","affiliation":[{"name":"Department of Genetics, Genomics Coordination Center, University Medical Center Groningen, University of Groningen , Groningen, 9700 RB,","place":["The Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Vincent","family":"Jaddoe","sequence":"additional","affiliation":[{"name":"Department of Pediatrics, Erasmus MC, University Medical Center Rotterdam , Rotterdam, 3015 GD,","place":["The Netherlands"]},{"name":"Generation R Study Group, Erasmus MC, University Medical Center Rotterdam , Rotterdam, 3015 GD,","place":["The Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tarik","family":"Karramass","sequence":"additional","affiliation":[{"name":"Department of Neonatal and Pediatric Intensive Care, Division of Neonatology, Erasmus MC, University Medical Center Rotterdam , Rotterdam, 3015 GD,","place":["The Netherlands"]},{"name":"Department of Pediatrics, Erasmus MC, University Medical Center Rotterdam , Rotterdam, 3015 GD,","place":["The Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Fleur","family":"Kelpin","sequence":"additional","affiliation":[{"name":"Department of Genetics, Genomics Coordination Center, University Medical Center Groningen, University of Groningen , Groningen, 9700 RB,","place":["The Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yannick","family":"Marcon","sequence":"additional","affiliation":[{"name":"Epigeny , Paris,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3593-8472","authenticated-orcid":false,"given":"Angela","family":"Pinot de Moira","sequence":"additional","affiliation":[{"name":"Department of Epidemiology and Biostatistics, Imperial College London , London, W2 1PG,","place":["United Kingdom"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dick","family":"Postma","sequence":"additional","affiliation":[{"name":"Department of Genetics, Genomics Coordination Center, University Medical Center Groningen, University of Groningen , Groningen, 9700 RB,","place":["The Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Clemens","family":"Tolboom","sequence":"additional","affiliation":[{"name":"Department of Genetics, Genomics Coordination Center, University Medical Center Groningen, University of Groningen , Groningen, 9700 RB,","place":["The Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ruben L","family":"Veenstra","sequence":"additional","affiliation":[{"name":"Department of Genetics, Genomics Coordination Center, University Medical Center Groningen, University of Groningen , Groningen, 9700 RB,","place":["The Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0003-2419-1964","authenticated-orcid":false,"given":"Stuart","family":"Wheater","sequence":"additional","affiliation":[{"name":"Arjuna Technologies, Newcastle Helix, Urban Science Building , Newcastle upon Tyne, NE4 5TG,","place":["United Kingdom"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marieke","family":"Welten","sequence":"additional","affiliation":[{"name":"Department of Pediatrics, Erasmus MC, University Medical Center Rotterdam , Rotterdam, 3015 GD,","place":["The Netherlands"]},{"name":"Generation R Study Group, Erasmus MC, University Medical Center Rotterdam , Rotterdam, 3015 GD,","place":["The Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2294-593X","authenticated-orcid":false,"given":"Rebecca C","family":"Wilson","sequence":"additional","affiliation":[{"name":"Department of Public Health, Policy and Systems, University of Liverpool , Liverpool, L69 3GF,","place":["United Kingdom"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Erik","family":"Zwart","sequence":"additional","affiliation":[{"name":"Department of Genetics, Genomics Coordination Center, University Medical Center Groningen, University of Groningen , Groningen, 9700 RB,","place":["The Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4552-003X","authenticated-orcid":false,"given":"Morris","family":"Swertz","sequence":"additional","affiliation":[{"name":"Department of Genetics, Genomics Coordination Center, University Medical Center Groningen, University of Groningen , Groningen, 9700 RB,","place":["The Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2024,12,2]]},"reference":[{"key":"2025011517555852400_btae726-B1","doi-asserted-by":"crossref","first-page":"203","DOI":"10.1038\/s41586-018-0579-z","article-title":"The UK biobank resource with deep phenotyping and genomic data","volume":"562","author":"Bycroft","year":"2018","journal-title":"Nature"},{"key":"2025011517555852400_btae726-B2","doi-asserted-by":"crossref","first-page":"753","DOI":"10.1093\/aje\/kwad206","article-title":"Associations of maternal educational level, proximity to green space during pregnancy, and gestational diabetes with body mass index from infancy to early adulthood: a proof-of-concept federated analysis in 18 birth cohorts","volume":"193","author":"Cadman","year":"2024","journal-title":"Am J Epidemiol"},{"key":"2025011517555852400_btae726-B3","doi-asserted-by":"crossref","first-page":"108453","DOI":"10.1016\/j.envint.2024.108453","article-title":"Urban environment in pregnancy and postpartum depression: an individual participant data meta-analysis of 12 european birth cohorts","volume":"185","author":"Cadman","year":"2024","journal-title":"Environ Int"},{"key":"2025011517555852400_btae726-B4","doi-asserted-by":"crossref","first-page":"12","DOI":"10.1186\/1742-7622-10-12","article-title":"Data harmonization and federated analysis of population-based studies: the bioshare project","volume":"10","author":"Doiron","year":"2013","journal-title":"Emerg Themes Epidemiol"},{"key":"2025011517555852400_btae726-B5","doi-asserted-by":"crossref","first-page":"1372","DOI":"10.1093\/ije\/dyx180","article-title":"Software application profile: opal and mica: open-source software solutions for epidemiological data management, harmonization and dissemination","volume":"46","author":"Doiron","year":"2017","journal-title":"Int J Epidemiol"},{"key":"2025011517555852400_btae726-B6","doi-asserted-by":"crossref","first-page":"100033","DOI":"10.1016\/j.xgen.2021.100033","article-title":"Candig: federated network across Canada for multi-omic and health data discovery and analysis","volume":"1","author":"Dursi","year":"2021","journal-title":"Cell Genom"},{"key":"2025011517555852400_btae726-B7","doi-asserted-by":"crossref","first-page":"1929","DOI":"10.1093\/ije\/dyu188","article-title":"Datashield: taking the analysis to the data, not the data to the analysis","volume":"43","author":"Gaye","year":"2014","journal-title":"Int J Epidemiol"},{"key":"2025011517555852400_btae726-B8","doi-asserted-by":"crossref","first-page":"167","DOI":"10.1007\/s00787-023-02149-0","article-title":"Sleep duration in preschool age and later behavioral and cognitive outcomes: an individual participant data meta-analysis in five european cohorts","volume":"33","author":"Guerlich","year":"2024","journal-title":"Eur Child Adolesc Psychiatry"},{"key":"2025011517555852400_btae726-B9","doi-asserted-by":"crossref","first-page":"709","DOI":"10.1007\/s10654-020-00662-z","article-title":"The lifecycle project-eu child cohort network: a federated analysis infrastructure and harmonized data of more than 250,000 children and parents","volume":"35","author":"Jaddoe","year":"2020","journal-title":"Eur J Epidemiol"},{"key":"2025011517555852400_btae726-B10","doi-asserted-by":"crossref","first-page":"475","DOI":"10.1007\/s10654-006-9022-0","article-title":"The generation r study: design and cohort profile","volume":"21","author":"Jaddoe","year":"2006","journal-title":"Eur J Epidemiol"},{"key":"2025011517555852400_btae726-B11","doi-asserted-by":"crossref","first-page":"46","DOI":"10.1186\/gm262","article-title":"Towards a data sharing code of conduct for international genomic research","volume":"3","author":"Knoppers","year":"2011","journal-title":"Genome Med"},{"key":"2025011517555852400_btae726-B12","doi-asserted-by":"crossref","first-page":"e1008880","DOI":"10.1371\/journal.pcbi.1008880","article-title":"Orchestrating privacy-protected big data analyses of data from different resources with R and datashield","volume":"17","author":"Marcon","year":"2021","journal-title":"PLoS Comput Biol"},{"key":"2025011517555852400_btae726-B13","author":"Moncada-Torres","year":"2020"},{"key":"2025011517555852400_btae726-B14","doi-asserted-by":"crossref","first-page":"565","DOI":"10.1007\/s10654-021-00733-9","article-title":"The eu child cohort network\u2019s core data: establishing a set of findable, accessible, interoperable and re-usable (fair) variables","volume":"36","author":"Pinot de Moira","year":"2021","journal-title":"Eur J Epidemiol"},{"key":"2025011517555852400_btae726-B15","doi-asserted-by":"crossref","first-page":"449","DOI":"10.2147\/CLEP.S91125","article-title":"The danish national patient registry: a review of content, data quality, and research potential","volume":"7","author":"Schmidt","year":"2015","journal-title":"Clin Epidemiol"},{"key":"2025011517555852400_btae726-B16","doi-asserted-by":"crossref","first-page":"107648","DOI":"10.1016\/j.envint.2022.107648","article-title":"Exposure to natural environments during pregnancy and birth outcomes in 11 european birth cohorts","volume":"170","author":"Torres Toda","year":"2022","journal-title":"Environ Int"},{"key":"2025011517555852400_btae726-B17","doi-asserted-by":"crossref","first-page":"e1004036","DOI":"10.1371\/journal.pmed.1004036","article-title":"Gestational age at birth and body size from infancy through adolescence: an individual participant data meta-analysis on 253,810 singletons in 16 birth cohort studies","volume":"20","author":"Vinther","year":"2023","journal-title":"PLoS Med"},{"key":"2025011517555852400_btae726-B18","first-page":"325","author":"Vohra","year":"2016"},{"key":"2025011517555852400_btae726-B19","doi-asserted-by":"crossref","first-page":"e166","DOI":"10.1097\/EE9.0000000000000166","article-title":"Advancing tools for human early lifecourse exposome research and translation (athlete): project overview","volume":"5","author":"Vrijheid","year":"2021","journal-title":"Environ Epidemiol"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/advance-article-pdf\/doi\/10.1093\/bioinformatics\/btae726\/60933515\/btae726.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/41\/1\/btae726\/60933515\/btae726.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/41\/1\/btae726\/60933515\/btae726.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,1,15]],"date-time":"2025-01-15T17:56:26Z","timestamp":1736963786000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/doi\/10.1093\/bioinformatics\/btae726\/7914926"}},"subtitle":[],"editor":[{"given":"Pier Luigi","family":"Martelli","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"editor"}]}],"short-title":[],"issued":{"date-parts":[[2024,12,2]]},"references-count":19,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2024,12,26]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btae726","relation":{},"ISSN":["1367-4811"],"issn-type":[{"value":"1367-4811","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2025,1]]},"published":{"date-parts":[[2024,12,2]]},"article-number":"btae726"}}