Publications

This page records a list of publications we are aware of describing DataSHIELD development or application for analysis with the impact of the DataSHIELD project based on the total citations of these papers in google scholar.

Application to real data

Franziska Jannasch, Stefan Dietrich, Tom R. P. Bishop, Matthew Pearce, Anouar Fanidi, Gráinne O’Donoghue, Donal O’Gorman, Pedro Marques-Vidal, Peter Vollenweider, Maira Bes-Rastrollo, Liisa Byberg, Alicja Wolk, Maryam Hashemian, Reza Malekzadeh, Hossein Poustchi, Vivian C. Luft, Sheila M. Alvim de Matos, Jihye Kim, Mi Kyung Kim, Yeonjung Kim, Dalia Stern, Martin Lajous, Dianna J. Magliano, Jonathan E. Shaw, Tasnime Akbaraly, Mika Kivimaki, Gertraud Maskarinec, Loïc Le Marchand, Miguel Ángel Martínez-González, Sabita S. Soedamah-Muthu, EPIC-InterAct Consortium, Nicholas J. Wareham, Nita G. Forouhi & Matthias B. Schulze (2022). Associations between exploratory dietary patterns and incident type 2 diabetes: a federated meta-analysis of individual participant data from 25 cohort studies. Eur J Nutr. https://doi.org/10.1007/s00394-022-02909-9

Angela Pinot de Moira, Katrine Strandberg-Larsen, Tom Bishop, Paul Burton, Liesbeth Duijts, Anne-Marie Nybo Andersen (2022). Associations of early-life pet ownership with asthma and allergic sensitization: A meta-analysis of more than 77,000 children from the EU Child Cohort Network. J Allergy Clin Immunol. 2022 Jul;150(1):82-92. doi: 10.1016/j.jaci.2022.01.023. Epub 2022 Feb 10. PMID: 35150722.

José L. Peñalvo,Elly Mertens, Enisa Ademović, Seval Akgun, Ana Lúcia Baltazar, Dora Buonfrate, Miran Čoklo, Brecht Devleesschauwer, Paula Andrea Diaz Valencia, João C. Fernandes, Enrique Javier Gómez, Paul Hynds, Zubair Kabir, Jörn Klein, Polychronis Kostoulas, Lucía Llanos Jiménez, Lucia Maria Lotrean, Marek Majdan, Ernestina Menasalvas, Paul Nguewa, In-Hwan Oh, Georgie O’Sullivan, David M. Pereira, Miguel Reina Ortiz, Silvia Riva, Gloria Soriano, Joan B. Soriano, Fernando Spilki, Mary Elizabeth Tamang, Antigona Carmen Trofor, Michel Vaillant, Sabrina Van Ierssel, Jakov Vuković, José M. Castellano (2021). Unravelling data for rapid evidence-based response to COVID-19: a summary of the unCoVer protocol | BMJ Open. BMJ Open 2021;11:e055630. doi: 10.1136/bmjopen-2021-055630 

Matthew Pearce, Anouar Fanidi, Tom R P Bishop, Stephen J Sharp, Fumiaki Imamura, Stefan Dietrich, Tasnime Akbaraly, Maira Bes-Rastrollo, Joline W J Beulens, Liisa Byberg, Scheine Canhada, Maria del Carmen B Molina, Zhengming Chen, Adrian Cortes-Valencia, Huaidong Du, Bruce B Duncan, Tommi Härkänen, Maryam Hashemian, Jihye Kim, Mi Kyung Kim, Yeonjung Kim, Paul Knekt, Daan Kromhout, Camille Lassale, Ruy Lopez Ridaura, Dianna J Magliano, Reza Malekzadeh, Pedro Marques-Vidal, Miguel Ángel Martínez-González, Gráinne O'Donoghue, Donal O'Gorman, Jonathan E Shaw, Sabita S Soedamah-Muthu, Dalia Stern, Alicja Wolk, Hye Won Woo, EPIC-InterAct Consortium, Nicholas J Wareham, Nita G Forouhi (2021). Associations of Total Legume, Pulse, and Soy Consumption with Incident Type 2 Diabetes: Federated Meta-Analysis of 27 Studies from Diverse World Regions. The Journal of Nutrition, Volume 151, Issue 5, May 2021, Pages 1231–1240, https://doi.org/10.1093/jn/nxaa447

Pastorino S, Bishop T, Sharp SJ, Pearce M, Akbaraly T, Barbieri NB, Bes-Rastrollo M, Beulens JWJ, Chen Z, Du H, Duncan BB, Goto A, Härkänen T, Hashemian M, Kromhout D, Järvinen R, Kivimaki M, Knekt P, Lin X, Lund E, Magliano DJ, Malekzadeh R, Martínez-González MÁ, O’Donoghue G, O’Gorman D, Poustchi H, Rylander C, Sawada N, Shaw JE, Schmidt M, Soedamah-Muthu SS, Sun L, Wen W, Wolk A, Shu X-O, Zheng W, Wareham NJ, Forouhi NG (2021). Heterogeneity of Associations between Total and Types of Fish Intake and the Incidence of Type 2 Diabetes: Federated Meta-Analysis of 28 Prospective Studies Including 956,122 Participants. Nutrients. 2021; 13(4):1223. https://doi.org/10.3390/nu13041223

Lenz, S, Hess, M & Binder, H (2021). Deep generative models in DataSHIELD. BMC Med Res Methodol 21, 64 (2021). https://doi.org/10.1186/s12874-021-01237-6

Pinart, M., Jeran, S., Boeing, H., Stelmach-Mardas, M., Standl, M., Schulz, H., Harris, C., von Berg, A., Herberth, G., Koletzko, S., Linseisen, J., Breuninger, T., Nöthlings, U.,Janett Barbaresko, J., Benda, S., Lachat, C., Yang, C., Gasparini, P., Robino, A., Rojo-Martínez, G., Castaño, L., Guillaume, M., Donneau, A., Hoge, A., Gillain, N., Avraam, D., Burton, P., Bouwman, J., Pischon, T. (2021). Dietary Macronutrient Composition in Relation to Circulating HDL and Non-HDL Cholesterol: A Federated Individual-Level Analysis of Cross-Sectional Data from Adolescents and Adults in 8 European Studies. The Journal of Nutrition, nxab077, https://doi.org/10.1093/jn/nxab077

Bonofiglio, F, Schumacher, M, Binder, H (2020). Recovery of original individual person data (IPD) inferences from empirical IPD summaries only: Applications to distributed computing under disclosure constraints, Statistics in Medicine. 2020; 39: 1183– 1198. https://doi.org/10.1002/sim.8470

Oluwagbemigun, K., Foerster, J., Watkins, C., Fouhy, F., Stanton, C., Bergmann, M. M., Boeing, H and Nöthlings, U (2019). Dietary Patterns Are Associated with Serum Metabolite Patterns and Their Association Is Influenced by Gut Bacteria among Older German Adults, The Journal of Nutrition, nxz194, doi:10.1093/jn/nxz194

Gruendner, J., Schwachhofer, T, Sippl, P, Wolf, N, Erpenbeck, M, Gulden, C, Kapsner, L. A, Zierk, J, Mate, S, Sturzl, M, Croner, R, Prokosch, H. U, Toddenroth, D. (2019) KETOS: Clinical decision support and machine learning as a service - A training and deployment platform based on Docker, OMOP-CDM, and FHIR Web Services. PLoS One, Volume 14, Issue 10, doi:10.1371/journal.pone. 0223010

Pastorino, S. , Bishop, T. , Crozier, S. R., Granström, C. , Kordas, K. , Küpers, L. K., O'Brien, E. , Polanska, K. , Sauder, K. A., Zafarmand, M. H., Wilson, B. , Agyemang, C. , Burton, P. R., Cooper, C. , Corpeleijn, E. , Dabelea, D. , Hanke, W. , Inskip, H. M., McAuliffe, F. , Olsen, S. F., Vrijkotte, T. G., Brage, S. , Kennedy, A. , O'Gorman, D. , Scherer, P. , Wijndaele, K. , Wareham, N. J., Desoye, G. and Ong, K. K. (2018). Associations between maternal physical activity in early and late pregnancy and offspring birth size: remote federated individual level meta‐analysis from eight cohort studies. BJOG: Int J Obstet Gy. doi:10.1111/1471-0528.15476

Zöller, D., Lenz, S., Binder H. (2018). Distributed multivariable modeling for signature development under data protecton constraints. Insitute of Medical Biometry and Statistics, Faculty of Medicine and Medical Center- University of Freiburg.

Mariëlle A. Beenackers, Dany Doiron, Isabel Fortier, J. Mark Noordzij, Erica Reinhard, Emilie Courtin, Martin Bobak, Basile Chaix, Giuseppe Costa, Ulrike Dapp, Ana V. Diez Roux, Martijn Huisman, Emily M. Grundy, Steinar Krokstad, Pekka Martikainen, Parminder Raina, Mauricio Avendano & Frank J. van Lenthe (2018). MINDMAP: establishing an integrated database infrastructure for research in ageing, mental well-being, and the urban environment. BMC Public Health 18, 158. https://doi.org/10.1186/s12889-018-5031-7

Dany Doiron, Yannick Marcon, Isabel Fortier, Paul Burton, Vincent Ferretti (2017). Software Application Profile: Opal and Mica: open-source software solutions for epidemiological data management, harmonization and dissemination. International Journal of Epidemiology, Volume 46, Issue 5, October 2017, Pages 1372–1378, https://doi.org/10.1093/ije/dyx180.

Doiron, D., de Hoogh, K., Probst-Hensch, N., Mbatchou, S., Eeftens, M., Cai, Y., Schindler, C., Fortier, I., Hodgson, S., Gaye, A., Stolk, R. and Hansell, A. (2017). Residential Air Pollution and Associations with Wheeze and Shortness of Breath in Adults: A Combined Analysis of Cross-Sectional Data from Two Large European Cohorts, Environmental Health Perspectives 125:9 CID: 097025 https://doi.org/10.1289/EHP1353

Cai, Y., Hansell, A.L., Blangiardo, M., Burton, P.R., BioSHaRE, de Hoogh, K., Doiron, D., Fortier, I., Gulliver, J., Hveem, K., Mbatchou, S., Morley, D.W., Stolk, R.P., Zijlema, W.L., Elliott, P., Hodgson,S. (2017). Long-term exposure to road traffic noise, ambient air pollution, and cardiovascular risk factors in the HUNT and lifelines cohorts, European Heart Journal, Volume 38, Issue 29, Pages 2290–2296. doi: 10.1093/eurheartj/ehx263

Cai, Y., Zijlema, W.L., Doiron, D., Blangiardo, M., Burton, P.R., Fortier, I., Gaye, A., Gulliver, J., de Hoogh, K., Hveem, K., Mbatchou, S., Morley, D.W., Stolk, R.P., Elliott, P., Hansell, A.L. and Hodgson, S. (2016). Ambient air pollution, traffic noise and adult asthma prevalence: a BioSHaRE approach. European Respiratory Journal ERJ-02127-2015. doi:10.1183/13993003.02127-2015

Zijlema, W., Cai, Y., Doiron, D., Mbatchou, S., Fortier, I., Gulliver, J., de Hoogh, K., Morley, D., Hodgson, S., Elliott, P., Key, T., Kongsgard, H., Hveem, K., Gaye, A., Burton, P., Hansell, A., Stolk, R. and Rosmalen, J. (2016). Road traffic noise, blood pressure and heart rate: Pooled analyses of harmonized data from 88,336 participants. Environmental Research 151, 804–813. doi:10.1016/j.envres.2016.09.014

van Vliet-Ostaptchouk JV, Nuotio ML, Slagter SN, Doiron D, Fischer K, Foco L, Gaye A, Gogele M, Heier M, Hiekkalinna T, Joensuu A, Newby C, Pang C, Partinen E, Reischl E, Schwienbacher C, Tammesoo ML, Swertz MA, Burton PR, Ferretti V, Fortier I, Giepmans L, Harris JR, Hillege HL, Holmen J, Jula A, Kootstra-Ros JE, Kvaloy K, Holmen TL, Mannisto S, Metspalu A, Midthjell K, Murtagh MJ, Peters A, Pramstaller PP, Saaristo T, Salomaa V, Stolk RP, Uusitupa M, van der Harst P, van der Klauw MM, Waldenberger M, Perola M, Wolffenbuttel BH (2014). The prevalence of metabolic syndrome and metabolically healthy obesity in Europe: a collaborative analysis of ten large cohort studies. BMC endocrine disorders, 14:9.

Doiron D, Burton PR, Marcon Y, Gaye A, Wolffenbuttel BHR, Perola M, Stolk RP, Foco L, Minelli C, Waldenberger M, Holle R, Kvaløy K,Hillege HL, Tassé A-M, Ferretti V, Fortier I (2013). Data harmonization and federated analysis of 3 population-based studies: the BioSHaRE project. Emerging Themes in Epidemiology, 10:12.

Informatics: proof of principle and formal implementation

Marcon Y, Bishop T, Avraam D, Escriba-Montagut X, Ryser-Welch P, Wheater S, Burton PB, González JR (2021) Orchestrating privacy-protected big data analyses of data from different resources with R and DataSHIELD. PLOS Computational Biology 17(3):e1008880. March 30, 2021 https://doi.org/10.1371/journal.pcbi.1008880

Gruendner J, Prokosch HU, Schindler S, Lenz S and Binder H. (2019).  A Queue-Poll Extension and DataSHIELD: Standardised, Monitored, Indirect and Secure Access to Sensitive Data. Stud. Health Technol Inform. 2019;258:115-119. PubMed PMID:30942726. doi: 10.3233/978-1-61499-959-1-115

Wilson RC, Butters OW, Avraam D, Baker J, Tedds J, Turner A, Murtagh M and Burton P. (2017). DataSHIELD – new directions and dimensions. Data Science Journal, 16, p.21. DOI: 10.5334/dsj-2017-021

Biostatistics: proof of principle and formal implementation

 
Banerjee, S., Bishop, T.R.P. dsSynthetic: synthetic data generation for the DataSHIELD federated analysis system. BMC Res Notes 15, 230 (2022). https://doi.org/10.1186/s13104-022-06111-2

Soumya Banerjee, Ghislain N. Sofack, Thodoris Papakonstantinou, Demetris Avraam, Paul Burton, Daniela Zöller & Tom R. P. Bishop; dsSurvival: Privacy preserving survival models for federated individual patient meta-analysis in DataSHIELD BMC Res Notes 15, 197 (2022). https://doi.org/10.1186/s13104-022-06085-1 

Gaye A, Marcon Y, Isaeva J, LaFlamme P, Turner A, Jones EM, Minion J, Boyd AW, Newby CJ, Nuotio M-L, Wilson R, Butters O, Murtagh BP, Doiron D, Giepmans L, Wallace SE, Budin-Ljøsne I, Schmidt CO, Boffetta P, Boniol M, Bota M, Carter KW, deKlerk N, Dibben C, Francis RW, Hiekkalinna T, Hveem K, Kvaløy K, Millar S, Perry IJ, Peters A, Phillips CM, Popham F, Raab G, Reischl E, Sheehan N, Waldenberger M, Perola M, van den Heuvel E, Macleod J, Knoppers BM, Stolk RP, Fortier I, Harris JR, Woffenbuttel BHR, Murtagh MJ, Ferretti V, Burton PR. (2014). DataSHIELD: taking the analysis to the data, not the data to the analysis. International Journal of Epidemiology.

Jones EM, Sheehan NA, Gaye A, Laflamme P, Burton PR. (2013). Combined analysis of correlated data when data cannot be pooled. STAT 2:72-85.

Jones, EM, Sheehan, N, Masca, N, Wallace, S, Murtagh, MJ, Burton, PR.(2012). DataSHIELD – shared individual-level analysis without sharing data: a biostatistical perspective. Norwegian Journal of Epidemiology. 21 (2): 231-239.

Wolfson M, Wallace SE, Masca N, Rowe G, Sheehan NA, Ferretti V, Laflamme P, Tobin MD, Macleod J, Little J, Fortier I, Knoppers BM, Burton PR. (2010). DataSHIELD: resolving a conflict in contemporary bioscience–performing a pooled analysis of individual-level data without sharing the data. International Journal of Epidemiology, 39(5):1372-1382.

DataSHIELD in a broader strategic context

Avraam, D., Jones, E. & Burton, P. A deterministic approach for protecting privacy in sensitive personal data. BMC Med Inform Decis Mak 22, 24 (2022). https://doi.org/10.1186/s12911-022-01754-4

Vrijheid M, Basagaña X, Gonzalez JR, Jaddoe VWV, Jensen G, Keun HC, McEachan RRC, Porcel J, Siroux V, Swertz MA, Thomsen C, Aasvang GM, Andrušaitytė S, Angeli K, Avraam D, Ballester F, Burton P, Bustamante M, Casas M, Chatzi L, Chevrier C, Cingotti N, Conti D, Crépet A, Dadvand P, Duijts L, van Enckevort E, Esplugues A, Fossati S, Garlantezec R, Gómez Roig MD, Grazuleviciene R, Gützkow KB, Guxens M, Haakma S, Hessel EVS, Hoyles L, Hyde E, Klanova J, van Klaveren JD, Kortenkamp A, Le Brusquet L, Leenen I, Lertxundi A, Lertxundi N, Lionis C, Llop S, Lopez-Espinosa MJ, Lyon-Caen S, Maitre L, Mason D, Mathy S, Mazarico E, Nawrot T, Nieuwenhuijsen M, Ortiz R, Pedersen M, Perelló J, Pérez-Cruz M, Philippat C, Piler P, Pizzi C, Quentin J, Richiardi L, Rodriguez A, Roumeliotaki T, Sabin Capote JM, Santiago L, Santos S, Siskos AP, Strandberg-Larsen K, Stratakis N, Sunyer J, Tenenhaus A, Vafeiadi M, Wilson RC, Wright J, Yang T, Slama R. Advancing tools for human early lifecourse exposome research and translation (ATHLETE): Project overview. Environ Epidemiol. 2021 Oct 1;5(5):e166. doi: 10.1097/EE9.0000000000000166. PMID: 34934888; PMCID: PMC8683140.

Avraam D, Wilson R, Butters O, Burton T, Nicolaides C, Jones E, Boyd A, Burton P. Privacy preserving data visualizations. EPJ Data Science10, 2 (2021)

Johan Sundström, Cecilia Björkelund, Vilmantas Giedraitis, Per-Olof Hansson, Marieann Högman, Christer Janson, Ilona Koupil, Margareta Kristenson, Ylva Trolle Lagerros, Jerzy Leppert, Lars Lind, Lauren Lissner, Ingegerd Johansson, Jonas F. Ludvigsson, Peter M. Nilsson, Håkan Olsson, Nancy L. Pedersen, Andreas Rosenblad, Annika Rosengren, Sven Sandin, Tomas Snäckerström, Magnus Stenbeck, Stefan Söderberg, Elisabete Weiderpass, Anders Wanhainen, Patrik Wennberg, Isabel Fortier, Susanne Heller, Maria Storgärds & Bodil Svennblad (2019) Rationale for a Swedish cohort consortium, Upsala Journal of Medical Sciences, 124:1, 21-28, DOI: 10.1080/03009734.2018.1556754

Avraam D, Boyd A, Goldstein H, Burton P. A software package for the application of probabilistic anonymisation to sensitive individual-level data: a proof of principle with an example from the ALSPAC birth cohort study. Journal of Longitudinal and Life Course Studies 9(4), pp 433-446, (2018).

Avraam D, Wilson RC, Burton P. Synthetic ALSPAC longitudinal datasets for the Big Data VR project. Wellcome Open Research 2:74, (2017).

Butters OW, Issa S, Lusted J, Newbury M, Parsloe R, Holden N, Free RC, Beck T, Wilson RC, Burton PR and Tedds JA. (2016). The Biomedical Research Infrastructure Software as a Service Kit (BRISSKit): technical description [version 1; referees: 2 approved with reservations]. F1000Research (5):1905 (doi: 10.12688/f1000research.8736.1)

Murtagh MJ, Turner A, Minion JT, Fay M, Burton PR. (2016). International Data Sharing in Practice: New Technologies Meet Old Governance Biopreservation and Biobanking. 14(3): 231-240.

Dove ES, Joly Y, Tasse AM, Knoppers BM. (2015). Genomic cloud computing: legal and ethical points to consider. Eur J Hum Genet. 23:1271-8.

Burton PR, Murtagh MJ, Boyd A, Williams JB, Dove ES, Wallace SE, Tassé A-M, Little J, Chisholm RL, Gaye A. (2015). Data Safe Havens in health research and healthcare. Bioinformatics. 31 (20):3241-3248

Demir I and Murtagh MJ (2013) Data sharing across biobanks: epistemic values, data mutability and data incommensurability. New Genetics and Society, 32:350-365.

Murtagh, MJ, Thorrison, G, Kaye, J, Fortier, I, Harris, JR, Cox, D, Deschênes, M, Laflamme, P, Ferretti, V, Sheehan, N, Hudson, T. Cambon Thomsen, A, Stolk, R, Knoppers, BM, Brookes, AJ. Burton, PR. (2012). Navigating the perfect [data] storm. Norwegian Journal of Epidemiology, 21(2):203-209

Harris JR, Burton PR, Knoppers BM, Lindpaintner K, Bledsoe M, Brookes AJ, Budin-Ljosne I, Chisholm R, Cox D, Deschenes M, Fortier I, Hainaut P, Hewitt R, Kaye J, Litton JE, Metspalu A, Ollier B, Palmer LJ, Palotie A, Pasterk M, Perola M, Riegman PH, van Ommen GJ, Yuille M, Zatloukal K. (2012). Toward a roadmap in global biobanking for health. European Journal of Human Genetics, 20:1105-1111

Murtagh MJ, Demir I, Harris JR, Burton PR. (2011). Realizing the promise of population biobanks: a new model for translation. Human genetics, 130(3):333-45.