Martorell-Marugán, JordiLópez-Domínguez, RaúlGarcía-Moreno, AdriánToro-Domínguez, DanielVillatoro-García, Juan AntonioBarturen, GuillermoMartín-Gómez, AdoraciónTroule, KevinGómez-López, GonzaloAl-Shahrour, FátimaGonzález-Rumayor, VíctorPeña-Chilet, MaríaDopazo, JoaquínSáez-Rodríguez, JulioAlarcón-Riquelme, Marta E.Carmona-Sáez, Pedro2022-07-192022-07-192021-06-24Martorell-Marugán J, López-Domínguez R, García-Moreno A, Toro-Domínguez D, Villatoro-García JA, Barturen G, et al. A comprehensive database for integrated analysis of omics data in autoimmune diseases. BMC Bioinformatics. 2021 Jun 24;22(1):343http://hdl.handle.net/10668/3807Background: Autoimmune diseases are heterogeneous pathologies with difcult diagnosis and few therapeutic options. In the last decade, several omics studies have provided signifcant insights into the molecular mechanisms of these diseases. Never‑theless, data from diferent cohorts and pathologies are stored independently in public repositories and a unifed resource is imperative to assist researchers in this feld.Results: Here, we present Autoimmune Diseases Explorer (https://adex.genyo.es), a database that integrates 82 curated transcriptomics and methylation studies cover‑ing 5609 samples for some of the most common autoimmune diseases. The data‑base provides, in an easy-to-use environment, advanced data analysis and statistical methods for exploring omics datasets, including meta-analysis, diferential expression or pathway analysis.Conclusions: This is the frst omics database focused on autoimmune diseases. This resource incorporates homogeneously processed data to facilitate integrative analyses among studies.enAtribución 4.0 InternacionalAtribución 4.0 Internacionalhttp://creativecommons.org/licenses/by/4.0/Autoimmune diseaseDatabaseGEOTranscriptomicsEpigenomicsCurationDatasetInterferon signatureGene expressionMeta-analysisEnfermedades autoinmunesBase de datosEpigenómicaConjunto de datosExpresión génicaMetaanálisisMedical Subject Headings::Information Science::Information Science::Information Storage and Retrieval::Databases as Topic::Databases, FactualMedical Subject Headings::Organisms::Eukaryota::Animals::Chordata::Vertebrates::Mammals::Primates::Haplorhini::Catarrhini::Hominidae::HumansMedical Subject Headings::Diseases::Immune System Diseases::Autoimmune DiseasesMedical Subject Headings::Disciplines and Occupations::Natural Science Disciplines::Biological Science Disciplines::Biology::Computational BiologyMedical Subject Headings::Phenomena and Processes::Genetic Phenomena::Genetic Processes::Gene Expression::Transcription, Genetic::TranscriptomeMedical Subject Headings::Phenomena and Processes::Genetic Phenomena::Genetic Processes::DNA MethylationMedical Subject Headings::Phenomena and Processes::Genetic Phenomena::Genetic Processes::Gene ExpressionMedical Subject Headings::Disciplines and Occupations::Natural Science Disciplines::Biological Science Disciplines::Biology::Genetics::Genomics::Epigenomicsresearch article34167460open access10.1186/s12859-021-04268-41471-2105PMC8223391