A comprehensive database for integrated analysis of omics data in autoimmune diseases Martorell Marugán, Jordi López Domínguez, Raúl García Moreno, Adrián Toro Domínguez, Daniel Villatoro García, Juan Antonio Barturen, Guillermo Alarcón Riquelme, Marta Eugenia Carmona Sáez, Pedro Autoinmune disease Database GEO Transcriptomics Epigenomics Curation Dataset Interferon signature Gene expression Meta-analysis This work is partially funded by FEDER/Junta de Andalucia-Consejeria de Economia y Conocimiento (Grant CV20-36723), Consejeria de Salud (Grant PI-0173-2017) and by EU/EFPIA Innovative Medicines Initiative Joint Undertaking PRECISESADS (115565). JMM is partially funded by Ministerio de Economia, Industria y Competitividad. None of the funding bodies played any role in the design of the study and collection, analysis, and interpretation of data nor in writing the manuscript. Background: Autoimmune diseases are heterogeneous pathologies with difficult diagnosis and few therapeutic options. In the last decade, several omics studies have provided significant insights into the molecular mechanisms of these diseases. Nevertheless, data from different cohorts and pathologies are stored independently in public repositories and a unified resource is imperative to assist researchers in this field. Results: Here, we present Autoimmune Diseases Explorer (https:// adex. genyo. es), a database that integrates 82 curated transcriptomics and methylation studies covering 5609 samples for some of the most common autoimmune diseases. The database provides, in an easy-to-use environment, advanced data analysis and statistical methods for exploring omics datasets, including meta-analysis, differential expression or pathway analysis. Conclusions: This is the first omics database focused on autoimmune diseases. This resource incorporates homogeneously processed data to facilitate integrative analyses among studies. 2021-07-30T10:03:52Z 2021-07-30T10:03:52Z 2021-06-24 journal article Martorell-Marugán, J... [et al.]. A comprehensive database for integrated analysis of omics data in autoimmune diseases. BMC Bioinformatics 22, 343 (2021). [https://doi.org/10.1186/s12859-021-04268-4] http://hdl.handle.net/10481/69997 10.1186/s12859-021-04268-4 eng info:eu-repo/grantAgreement/EC/FP7/115565 http://creativecommons.org/licenses/by/3.0/es/ open access Atribución 3.0 España BMC