Asthma
AsthmaMap
Homepage: https://asthma-map.github.io
Online access and exploration: https://asthma.uni.lu
Video tutorials: https://asthma-map.github.io/tutorials
Development status: First version is complete and published
Disease IDs: DOID:2841, MESH:D001249, MONDO:0004979, ICD10CM:J45
Sustainable support: MINERVA Platform
Construction tools: yEd Graph Editor, CellDesigner
Funding: IMI U-BIOPRED n°115010, IMI eTRIKS n°115446
How to cite: Mazein, et al. J Allergy Clin Immunol. 2020. PMID: 33309742
Contact: Alexander Mazein, University of Luxembourg, a.mazein(at)gmail.com
AsthmaMap (http://asthma-map.github.io) is a community-driven project initiated as a part of U-BIOPRED (Unbiased Biomarkers for the Prediction of Respiratory Disease Outcomes) data analysis and integration platform and then continued within eTRIKS (European Translational Information and Knowledge Management Services).
The objectives are:
- Develop a pathway-based network reconstruction of the asthma mechanisms.
- Map fingerprints (one type of 'omics) and handprints data (several types of 'omics) to the network.
- Perform network-based analysis, interpretation and hypothesis generation.
- Propose disease endotypes.
AsthmaMap is constructed based on literature mining, with systematic review by domain experts. It is a consensus view on asthma mechanisms that consists of three interconnected layers of granularity:
- AsthmaMap Cellular Interactions (high-level view);
- AsthmaMap Activity Flow (intermediate level of details);
- AsthmaMap Process Description (the most detailed layer).
The high-level view includes 22 cell types and is connected to the underlying pathways. It can be used for data interpretation on systems level while keeping the focus on the involvement of different cell types in asthma pathogenesis. U-BIOPRED data mapping and interpretation are ongoing. After sufficient validation, proposed endotypes can be used for redefining disease subtypes and fine-tuning of diagnosis and treatment.
AsthmaMap is being developed in close collaboration with the LCSB MINERVA team.
Publications
Mazein A, Ivanova O, Balaur I, Ostaszewski M, Berzhitskaya V, Serebriyskaya T, Ligon T, Hasenauer J, De Meulder B, Overall RW, Roy L, Knowles RG, Wheelock CE, Dahlen SE, Chung KF, Adcock IM, Roberts G, Djukanovic R, Pellet J, Gawron P, Balling R, Maitland-van der Zee AH, Schneider R, Sterk PJ, Auffray C; U-BIOPRED Study Group and the eTRIKS Consortium. AsthmaMap: an interactive knowledge repository for mechanisms of asthma. J Allergy Clin Immunol. 2020 Dec 9:S0091-6749(20)31707-3. doi: 10.1016/j.jaci.2020.11.032. Epub ahead of print. PMID: 33309742.
Mazein A, Knowles RG, Adcock I, Chung KF, Wheelock CE, Maitland-van der Zee AH, Sterk PJ, Auffray C; AsthmaMap Project Team. AsthmaMap: An expert-driven computational representation of disease mechanisms. Clin Exp Allergy. 2018 Aug;48(8):916-918. doi: 10.1111/cea.13211. PubMed PMID: 30133857.
AsthmaMap Editorial Panel
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Peter Sterk, MD University of Amsterdam, Netherlands Professor of the Pathophysiology and Phenotyping of Asthma and COPD at the Faculty of Medicine Coordinator of the IMI U-BIOPRED project |
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Fan Chung, MD Imperial College London, UK Professor of Respiratory Medicine and Head of Experimental Studies Medicine at the National Heart & Lung Institute, Consultant Physician at the Royal Brompton & Harefield NHS Trust, London |
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Richard Knowles, PhD Knowles Consulting, UK Scientific Drug Discovery Consultant at the Stevenage Bioscience Catalyst |
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Craig Wheelock, PhD Karolinska Institutet, Sweden Head of the Integrative Molecular Phenotyping laboratory, Division of Physiological Chemistry II, Department of Medical Biochemistry and Biophysics |
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Sven-Erik Dahlen, MD, PhD Karolinska Institutet, Sweden Professor in Experimental Asthma and Allergy Research |
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Ian Adcock, PhD Imperial College London, UK Professor of Respiratory Cell & Molecular Biology, Head of the Molecular Cell Biology Group at the National Heart & Lung Institute |
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Anke-Hilse Maitland-van der Zee, PhD Academic Medical Center, Amsterdam, Netherlands Professor Precision Medicine in Respiratory Disease, President of the Federation of Innovative Drug Research in the Netherlands, Coordinator of the ERANET SysPharmPediA project |
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Ratko Djukanovic, MD, DM, FRCP University of Southampton, UK Professor of Medicine, Director of the Southampton NIHR Respiratory Biomedical Research Unit, Director of the NIHR Southampton Centre for Biomedical Research |
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Graham Roberts, DM, FRCPCH, MA, MSc University of Southampton, UK Professor and Honorary Consultant Paediatrician in Paediatric Allergy and Respiratory Medicine |
AsthmaMap Development Team
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Alexander Mazein, PhD European Institute for Systems Biology and Medicine, France Researcher |
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Irina Balaur, PhD European Institute for Systems Biology and Medicine, France Researcher |
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Olga Ivanova, MSc European Institute for Systems Biology and Medicine, France Research Intern |
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Ludovic Roy, MSc European Institute for Systems Biology and Medicine, France Researcher |
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Bertrand De Meulder, PhD European Institute for Systems Biology and Medicine, France Researcher |
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Tatiana Serebriyskaya, PhD Moscow Institute of Physics and Technology, Russia Head of the Laboratory for Translational Research and Personalized Medicine |
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Valeriya Berzhitskaya, PhD Moscow Institute of Physics and Technology, Russia Researcher |
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Rupert Overall, PhD German Center for Neurodegenerative Diseases (DZNE), Dresden, Germany Platform Leader, Cognitive Resilience Map |
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Johann Pellet, MSc European Institute for Systems Biology and Medicine, France Researcher |
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Charles Auffray, PhD European Institute for Systems Biology and Medicine, France Research Director at CNRS, Founding Director of the EISBM |
Modelling
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Jan Hasenauer, PhD Helmholtz Zentrum München-German Research Center for Environmental Health, Neuherberg, Germany Group Leader, Institute of Computational Biology |
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Thomas Ligon, PhD Ludwig Maximilian University of Munich, Munich, Germany Guest Scientist, Faculty of Physics and Center for NanoScience |
AsthmaMap support in MINERVA
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Piotr Gawron, PhD University of Luxembourg, Luxembourg Researcher, Luxembourg Centre for Systems Biomedicine |
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Marek Ostaszewski, PhD University of Luxembourg, Luxembourg Researcher, Luxembourg Centre for Systems Biomedicine |
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Reinhard Schneider, PhD University of Luxembourg, Luxembourg Head of Bioinformatics Core, Luxembourg Centre for Systems Biomedicine |
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Rudi Balling, PhD University of Luxembourg, Luxembourg Director, Luxembourg Centre for Systems Biomedicine |
Funding
The AsthmaMap project is funded in part by the Innovative Medicines Initiative (IMI) funded by the European Union and the European Federation of Pharmaceutical Industry Associations through U-BIOPRED (Unbiased Biomarkers for the Prediction of Respiratory Disease Outcomes, n°115010) and eTRIKS (European Translational Information and Knowledge Management Services, IMI n°115446), the French National Center for Scientific Research (CNRS), the European Institute for Systems Biology and Medicine and the Luxembourg Center for Systems Biomedicine.