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A comprehensive and centralized database for exploring omics data in Autoimmune Diseases

View ORCID ProfileJordi Martorell-Marugán, View ORCID ProfileRaúl López-Domínguez, View ORCID ProfileAdrián García-Moreno, View ORCID ProfileDaniel Toro-Domínguez, View ORCID ProfileJuan Antonio Villatoro-García, View ORCID ProfileGuillermo Barturen, Adoración Martín-Gómez, View ORCID ProfileKevin Troule, View ORCID ProfileGonzalo Gómez-López, View ORCID ProfileFátima Al-Shahrour, View ORCID ProfileMaría Peña-Chilet, View ORCID ProfileJoaquín Dopazo, Víctor González-Rumayor, View ORCID ProfileMarta E. Alarcón-Riquelme, View ORCID ProfilePedro Carmona-Sáez
doi: https://doi.org/10.1101/2020.06.10.144972
Jordi Martorell-Marugán
1Bioinformatics Unit. GENYO. Centre for Genomics and Oncological Research: Pfizer / University of Granada / Andalusian Regional Government, PTS Granada, 18016, Granada, Spain
2Atrys Health S.A., Barcelona, Spain
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Raúl López-Domínguez
1Bioinformatics Unit. GENYO. Centre for Genomics and Oncological Research: Pfizer / University of Granada / Andalusian Regional Government, PTS Granada, 18016, Granada, Spain
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Adrián García-Moreno
1Bioinformatics Unit. GENYO. Centre for Genomics and Oncological Research: Pfizer / University of Granada / Andalusian Regional Government, PTS Granada, 18016, Granada, Spain
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Daniel Toro-Domínguez
1Bioinformatics Unit. GENYO. Centre for Genomics and Oncological Research: Pfizer / University of Granada / Andalusian Regional Government, PTS Granada, 18016, Granada, Spain
3Genetics of Complex Diseases. GENYO. Centre for Genomics and Oncological Research: Pfizer / University of Granada / Andalusian Regional Government, PTS Granada, 18016, Granada, Spain
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Juan Antonio Villatoro-García
1Bioinformatics Unit. GENYO. Centre for Genomics and Oncological Research: Pfizer / University of Granada / Andalusian Regional Government, PTS Granada, 18016, Granada, Spain
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Guillermo Barturen
3Genetics of Complex Diseases. GENYO. Centre for Genomics and Oncological Research: Pfizer / University of Granada / Andalusian Regional Government, PTS Granada, 18016, Granada, Spain
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Adoración Martín-Gómez
4Nephrology Units. AADEA: Asociación Andaluza de Enfermedades Autoinmunes. Hospital de Poniente, 04700. Almería, Spain
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Kevin Troule
5Bioinformatics Unit. Spanish National Cancer Center, CNIO, Madrid, Spain
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Gonzalo Gómez-López
5Bioinformatics Unit. Spanish National Cancer Center, CNIO, Madrid, Spain
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Fátima Al-Shahrour
5Bioinformatics Unit. Spanish National Cancer Center, CNIO, Madrid, Spain
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María Peña-Chilet
6Clinical Bioinformatics Area, Fundación Progreso y Salud (FPS), CDCA, Hospital Virgen del Rocío, 41013, Sevilla, Spain
7Bioinformatics in Rare Diseases (BiER). Centro de Investigación Biomédica en Red de Enfermedades Raras (CIBERER), FPS, Hospital Virgen del Rocio. 41013. Sevilla, Spain
8Computational Systems Medicine, Institute of Biomedicine of Seville (IBIS), Hospital Virgen del Rocio. 41013. Sevilla. Spain
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Joaquín Dopazo
6Clinical Bioinformatics Area, Fundación Progreso y Salud (FPS), CDCA, Hospital Virgen del Rocío, 41013, Sevilla, Spain
7Bioinformatics in Rare Diseases (BiER). Centro de Investigación Biomédica en Red de Enfermedades Raras (CIBERER), FPS, Hospital Virgen del Rocio. 41013. Sevilla, Spain
8Computational Systems Medicine, Institute of Biomedicine of Seville (IBIS), Hospital Virgen del Rocio. 41013. Sevilla. Spain
9INB-ELIXIR-es, FPS, Hospital Virgen del Rocío, Sevilla, 42013, Spain
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Víctor González-Rumayor
2Atrys Health S.A., Barcelona, Spain
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Marta E. Alarcón-Riquelme
3Genetics of Complex Diseases. GENYO. Centre for Genomics and Oncological Research: Pfizer / University of Granada / Andalusian Regional Government, PTS Granada, 18016, Granada, Spain
10Unit of Chronic Inflammatory Diseases, Institute of Environmental Medicine, Karolinska Institutet, 17177, Stockholm, Sweden
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Pedro Carmona-Sáez
1Bioinformatics Unit. GENYO. Centre for Genomics and Oncological Research: Pfizer / University of Granada / Andalusian Regional Government, PTS Granada, 18016, Granada, Spain
11Department of Statistics. University of Granada, 18071, Granada, Spain
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  • For correspondence: pedro.carmona@genyo.es
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Summary

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. Here, we present ADEx (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.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • https://adex.genyo.es

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted June 11, 2020.
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A comprehensive and centralized database for exploring omics data in Autoimmune Diseases
Jordi Martorell-Marugán, Raúl López-Domínguez, Adrián García-Moreno, Daniel Toro-Domínguez, Juan Antonio Villatoro-García, Guillermo Barturen, Adoración Martín-Gómez, Kevin Troule, Gonzalo Gómez-López, Fátima Al-Shahrour, María Peña-Chilet, Joaquín Dopazo, Víctor González-Rumayor, Marta E. Alarcón-Riquelme, Pedro Carmona-Sáez
bioRxiv 2020.06.10.144972; doi: https://doi.org/10.1101/2020.06.10.144972
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A comprehensive and centralized database for exploring omics data in Autoimmune Diseases
Jordi Martorell-Marugán, Raúl López-Domínguez, Adrián García-Moreno, Daniel Toro-Domínguez, Juan Antonio Villatoro-García, Guillermo Barturen, Adoración Martín-Gómez, Kevin Troule, Gonzalo Gómez-López, Fátima Al-Shahrour, María Peña-Chilet, Joaquín Dopazo, Víctor González-Rumayor, Marta E. Alarcón-Riquelme, Pedro Carmona-Sáez
bioRxiv 2020.06.10.144972; doi: https://doi.org/10.1101/2020.06.10.144972

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