Clinical data specification and coding for cross-analyses with omics data in autoimmune disease trials

Lorenzon, R.; Drakos, I.; Ribet, C.; Harris, S.; Cordoba, M.; Tran, O.; Dasque, E.; Cacoub, P.; Hartemann, A.; Bodaghi, B.; Saadoun, D.; Berenbaum, F.; Grateau, G.; Ronco, P.; Benveniste, O.; Mariampillai, K.; Sellam, J.; Seksik, P.; Rosenzwajg, M.; Six, A.; Bernard, C.; Aheng, C.; Vicaut, E.; Klatzmann, D.; Mariotti-Ferrandiz, E.

doi:10.1101/360719

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bioRxiv · 10.1101/360719

Clinical data specification and coding for cross-analyses with omics data in autoimmune disease trials

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Abstract

ObjectivesAutoimmune and inflammatory diseases (AIDs) form a continuum of autoimmune and inflammatory diseases, yet AIDs nosology is based on syndromic classification. The TRANSIMMUNOM trial (NCT02466217) was designed to re-evaluate AIDs nosology through clinic-biological and multi-omics investigations of patients with one of 19 selected AIDs. To allow cross-analyses of clinic-biological data together with omics data, we needed to integrate clinical data in a harmonized database.\n\nMaterials and MethodsWe assembled a clinical expert consortium (CEC) to select relevant clinic-biological features to be collected for all patients and a cohort management team comprising biologists, clinicians and computer scientists to design an electronic case report form (eCRF). The eCRF design and implementation has been done on OpenClinica, an open-source CFR-part 11 compliant electronic data capture system.\n\nResultsThe CEC selected 865 clinical and biological parameters. The CMT selected coded the items using CDISC standards into 5835 coded values organized in 28 structured eCRFs. Examples of such coding are check boxes for clinical investigation, numerical values with units, disease scores as a result of an automated calculations, and coding of possible treatment formulas, doses and dosage regimens per disease.\n\nDiscussion21 CRFs were designed using OpenClinica v3.14 capturing the 5835 coded values per patients. Technical adjustment have been implemented to allow data entry and extraction of this amount of data, rarely achieved in classical eCRFs designs.\n\nConclusionsA multidisciplinary endeavour offers complete and harmonized CRFs for AID clinical investigations that are used in TRANSIMMUNOM and will benefit translational research team.

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Lorenzon, R., Drakos, I., Ribet, C., Harris, S., Cordoba, M., Tran, O., Dasque, E., Cacoub, P., Hartemann, A., Bodaghi, B., Saadoun, D., Berenbaum, F., Grateau, G., Ronco, P., Benveniste, O., Mariampillai, K., Sellam, J., Seksik, P., Rosenzwajg, M., Six, A., Bernard, C., Aheng, C., Vicaut, E., Klatzmann, D., Mariotti-Ferrandiz, E.. 2018-07-05. Clinical data specification and coding for cross-analyses with omics data in autoimmune disease trials. https://doi.org/10.1101/360719

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