Here, you can find topic-related background literature as well as dissemination activities of the REPO-TRIAL consortium itself. Once new publications are available, we will list them here, including links to the full-text version or journal repository.

2023

• Sarkar S, Lucchetta M, Maier A et al. (2023). Online bias-aware disease module mining with ROBUST-Web. Bioinformatics. Volume 39, Issue 6: btad345. PDF
• Sadegh S, Skelton J, Anastasi E et al. (2023). Lacking mechanistic disease definitions and corresponding association data hamper progress in network medicine and beyond. Nat Commun. Volume 14: 1662. PDF

2022

• Mucke H. (2022). REPO-STROKE II, the three-component drug repurposing study, starts inclusion of patients. Press release. PDF
• Petraina A, Elbatreek MH and Elgert C et al. (2022). Repurposing soluble guanylate cyclase stimulators from one to another isoform within the ROCG signalling module.  ScienceOpen. Presented at RExPO22. PDF
• Mamdouh ZM et al. (2022). Network pharmacology and drug repurposing pave the way for precision oncology.  ScienceOpen. Presented at RExPO22. PDF
• Sadegh S et al. (2022). NeDRex – an integrative and interactive network medicine platform for drug repurposing.  ScienceOpen. Presented at RExPO22. PDF
• Hartung M, Maier A et al. (2022). A plug-and-play solution to bring network exploration and drug repurposing to biomedical web platforms.  ScienceOpen. Presented at RExPO22. PDF
• Ho F, Watson AMD, Elbatreek MH et al. (2022). Endothelial reactive oxygen-forming NADPH oxidase 5 is a possible player in diabetic aortic aneurysm but not atherosclerosis.  Sci Rep. Volume 12: 11570. PDF
• Casas AI, Hassan AA, Manz Q et al. (2022). Un-biased housekeeping gene panel selection for high-validity gene expression analysis.  Sci Rep. Volume 12: 12324. PDF
• Hartung M, Anastasi E, Mamdouh ZM et al. (2022). Cancer driver drug interaction explorer. Nucleic Acids Research. Volume 50, Issue W1: pages W138–W144. PDF
• Adamowicz K, Maier A, Baumbach J, Blumenthal DB. (2022). Online in silico validation of disease and gene sets, clusterings or subnetworks with DIGEST. Briefings in Bioinformatics. Volume 23, Issue 4: bbac247. PDF
• De Meyer SF, Langhauser F, Haupeltshofer S, Kleinschnitz C, Casas AI. (2022). Thromboinflammation in Brain Ischemia: Recent Updates and Future Perspectives. Stroke. Volume 53: pages 1487–1499. PDF
• Bernett J, Krupke D, Sadegh S et al. (2022). Robust disease module mining via enumeration of diverse prize-collecting Steiner trees. Bioinformatics. Volume 38, Issue 6: Pages 1600–1606. PDF
• Mucke H. (2022). Intellectual Property Considerations. Drug Repurposing (book). Chapter 13: pages 264 – 279.
• REPO-TRIAL Consortium (2022). Publishable Summary of the 3rd Research Period (1st February 2021 – 31st January 2022). Publishable Summary. PDF

2021

• Nogales C, Mamdouh ZM, List M, Kiel C, Casas AI, and Schmidt HHHW. (2021). Network pharmacology: curing causal mechanisms instead of treating symptoms. Trends in Pharmacological Sciences. Volume 43, Number 2. PDF
• Petraina A, Nogales C, Krahn T et al. (2021). Cyclic GMP modulating drugs in cardiovascular diseases: mechanism-based network pharmacology. Cardiovascular Research. cvab240. PDF
• Sadegh S, Skelton J, Anastasi E et al. (2021). Network medicine for disease module identification and drug repurposing with the NeDRex platform. Nat Commun. Volume 12, Article number 6848. PDF
• Galindez G et al. (2021). Lessons from the COVID-19 pandemic for advancing computational drug repurposing strategies. Nat Comput Sci. Volume 1: pages 33–41. PDF
• Mucke H. (2021). REPO-TRIAL: DAS EU DRUG REPURPOSING PROJEKT BEREITET EINE SCHLAGANFALLSTUDIE VOR. Press release. PDF
• Mucke H. (2021). REPO-TRIAL PREPARES FOR ITS CLINICAL STUDY IN STROKE PATIENTS. Press release. PDF
• REPO-TRIAL Consortium (2021). Publishable Summary of the 2nd Research Period (1st August 2019 – 31st January 2021). Publishable Summary. PDF

2020

• Silverman EK et al. (2020). Molecular networks in Network Medicine: Development and applications. WIREs Syst Biol Med. Volume 12:e1489. PDF
• Adamo L, Yu J, Rocha-Resende C et al. (2020). Proteomic Signatures of Heart Failure in Relation to Left Ventricular Ejection Fraction. Journal of the American College of Cardiology. Volume 76(17): pages 1982-94. PDF
• Casas AI et al. (2020). On the Clinical Pharmacology of Reactive Oxygen Species. Pharmacological Reviews. Volume 72 (4): pages 801-828. PDF
• Comte B et al. (2020). Network and Systems Medicine: Position Paper of the European Collaboration on Science and Technology Action on Open Multiscale Systems Medicine. Network and Systems Medicine. Volume 3(1): pages 67-90. PDF
• Elbatreek MH et al. (2020). NOX5-induced uncoupling of endothelial NO synthase is a causal mechanism and theragnostic target of an age-related hypertension endotype. PLoS Biol. Volume 18(11): e3000885. PDF
• Flosbach M et al. (2020). PTPN2 Deficiency Enhances Programmed T Cell Expansion and Survival Capacity of Activated T Cells. Cell Rep. Volume 32(4): 107957. PDF
• Frisch T et al. (2020). Multiple Sclerosis Atlas: A Molecular Map of Brain Lesion Stages in Progressive Multiple Sclerosis. Network and Systems Medicine. Volume 3(1): pages 122-129. PDF
• Grønning AGB et al. (2020). DeepCLIP: predicting the effect of mutations on protein–RNA binding with deep learning. Nucleic Acids Res. Volume 48(13): pages 7099–7118. PDF
• Hufsky F et al. (2020). Computational strategies to combat COVID-19: useful tools to accelerate SARS-CoV-2 and coronavirus research. Briefings in Bioinformatics. Volume 22(2): pages 642-663. PDF
• Larsen SJ, Schmidt HHHW and Baumbach J. (2020). De Novo and Supervised Endophenotyping Using Network-Guided Ensemble Learning. Systems Medicine. Volume 3(1): pages 8-21. PDF
• Li S et al. (2020). Exploratory analysis of age and sex dependent DNA methylation patterns on the X-chromosome in whole blood samples. Genome Medicine. Volume 12, Article number: 39. PDF
• Li W et al. (2020). Differential long noncoding RNA profiling of BMI in twins. Epigenomics. Volume 12(17): pages 1531–1541. PDF
• Louadi Z et al. (2020). DIGGER: exploring the functional role of alternative splicing in protein interactions. Nucleic Acids Res. Volume 49(D1): pages D309–D318. PDF
• Mucke H. (2020). COVID-19 and the Drug Repurposing Tsunami. ASSAY and Drug Development Technologies. Volume 18(5): pages 211-214.
• Pai S et al. (2020). netDx: Software for building interpretable patient classifiers by multi-‘omic data integration using patient similarity networks. F1000Res. Volume 15(9): page 1239. PDF
• REPO-TRIAL Consortium (2020). Publishable Summary of the 1st Research Period (1st February 2018 – 31st July 2019). Publishable Summary. PDF
• Sadegh S et al. (2020). Exploring the SARS-CoV-2 virus-host-drug interactome for drug repurposing. Nature Communications. Volume 11, Article number: 3518. PDF
• Schmidt H.H.H.W. (2020). La network medicine sarà una vera rivoluzione per la nostra salute [article in Italian]. Corriere della Sera. (23 January 2020)
• Teixeira Dornelles Parise M et al. (2020). CoryneRegNet 7, the reference database and analysis platform for corynebacterial gene regulatory networks. Scientific Data. Volume 7, Article number: 142. PDF
• Thao-Vi Dao V et al. (2020). Isoform-selective NADPH oxidase inhibitor panel for pharmacological target validation. Free Radical Biology and Medicine. Volume 148: pages 60-69. PDF
• Thao-Vi Dao V et al. (2020). Non-canonical chemical feedback self-limits nitric oxide-cyclic GMP signaling in health and disease. Sci Rep. Volume 10, Article number: 10012. PDF
• Torkzadehmahani R et al. (2020). Privacy-preserving Artificial Intelligence Techniques in Biomedicine. arXiv e-prints. PDF
• Wolff J et al. (2020). The Economic Impact of Artificial Intelligence in Health Care: Systematic Review. J Med Internet Res. Volume 22(2): e16866. PDF

2019

• Casas AI, Hassan AA, Larsen SJ et al. (2019). From single drug targets to synergistic network pharmacology in ischemic stroke. PNAS. Volume 116: pages 7129-7136. PDF
• Casas AI, Kleikers PWM, Geuss E et al. (2019). Calcium-dependent blood-brain barrier breakdown by NOX5 limits postreperfusion benefit in stroke. J Clin Invest. Volume 130: pages 1772-1778. PDF
• Elbatreek MH, Pachado MP, Cuadrado A, Jandeleit-Dahm K, Schmidt HHHW. (2019). Reactive Oxygen Comes of Age: Mechanism-Based Therapy of Diabetic End-Organ Damage. Trends Endocrinol Metab. Volume 30: pages 312-327. PDF
• Elkjaer ML et al. (2019). Molecular signature of different lesion types in the brain white matter of patients with progressive multiple sclerosis. Acta Neuropathol Commun. Volume 7, Article number: 205. PDF
• Enzym hemmt Zusammenbruch der Blut-Hirn-Schranke nach Schlaganfall [article in German] (2019). Ärzteblatt. News/102842 (7 May 2019)
• Larsen SJ, Röttger R, Schmidt HHHW, Baumbach J. (2019). E. coli gene regulatory networks are inconsistent with gene expression data. Nucleic Acids Res. Volume 47: pages 85-92. PDF
• Mucke H. (2019). An Answerable Challenge. European Biopharmaceutical Review. July 2019: pages 14-17.

2018

• Aguirre-Plans J, Piñero J, Menche J, Sanz F, Furlong LI, Schmidt HHHW, Oliva B, Guney E. (2018). Proximal Pathway Enrichment Analysis for Targeting Comorbid Diseases via Network Endopharmacology. Pharmaceuticals. Volume 11(3): page 61. PDF
• Cuadrado A, Manda G, Hassan A et al. (2018). Transcription Factor NRF2 as a Therapeutic Target for Chronic Diseases: A Systems Medicine Approach. Pharmacol Rev. Volume 70 (2): pages 348-383. PDF
• Langhauser F, Casas AI, Dao VTV et al. (2018). A diseasome cluster-based drug repurposing of soluble guanylate cyclase activators from smooth muscle relaxation to direct neuroprotection. NPJ Syst Biol Appl. Volume 4, online first: pages 1-13. PDF
• REPO-TRIAL Project. (5/31/18). Press Release: REPO-TRIAL – A European Union Project for in silico Trial-Based Drug Repurposing. Maastricht.
• Schmidt HHHW, Baumbach J, Loscalzo J et al. (2018). Expert Panel Discusses the Importance of Systems Medicine. Systems Medicine. Volume 1 (1): pages 3-8. PDF