An in silico-based approach to improve the efficacy and precision of drug REPurpOsing TRIALs for a mechanism-based patient cohort with predominant cerebro-cardiovascular phenotypes

Risultati finali

Publish an open pre-clinical biobank for pre-clinical animal models related commROCG and other disease phenotypes for both genders

Publish an open preclinical biobank for preclinical animal models related commROCG and other disease phenotypes for both genders

Project brochure and professional templates
Communication and dissemination plan

Software for detection of pathway co-enrichment for extracting of patient(group)-specific pathways also enriched in target sites of effective drugs
Drugome 1.0 network

Drugome 10 network

Diseasome 2.0 network

Pubblicazioni

Non-canonical chemical feedback self-limits nitric oxide-cyclic GMP signaling in health and disease

Autori: Vu Thao-Vi Dao, Mahmoud H. Elbatreek, Martin Deile, Pavel I. Nedvetsky, Andreas Güldner, César Ibarra-Alvarado, Axel Gödecke, Harald H. H. W. Schmidt
Pubblicato in: Scientific Reports, Numero 10/1, 2020, ISSN 2045-2322
Editore: Nature Publishing Group
DOI: 10.1038/s41598-020-66639-w

On the Clinical Pharmacology of Reactive Oxygen Species

Autori: Ana I. Casas, Cristian Nogales, Hermann A. M. Mucke, Alexandra Petraina, Antonio Cuadrado, Ana I. Rojo, Pietro Ghezzi, Vincent Jaquet, Fiona Augsburger, Francois Dufrasne, Jalal Soubhye, Soni Deshwal, Moises Di Sante, Nina Kaludercic, Fabio Di Lisa, Harald H. H. W. Schmidt
Pubblicato in: Pharmacological Reviews, Numero 72/4, 2020, Pagina/e 801-828, ISSN 0031-6997
Editore: American Society for Pharmacology and Experimental Therapeutics
DOI: 10.1124/pr.120.019422

De Novo and Supervised Endophenotyping Using Network-Guided Ensemble Learning

Autori: Simon J. Larsen, Harald H.H.W. Schmidt, Jan Baumbach
Pubblicato in: Systems Medicine, Numero 3/1, 2020, Pagina/e 8-21, ISSN 2573-3370
Editore: Network and Systems Medicine
DOI: 10.1089/sysm.2019.0008

Cyclic GMP modulating drugs in cardiovascular diseases: mechanism-based network pharmacology

Autori: Alexandra Petraina, Cristian Nogales, Thomas Krahn, Hermann Mucke, Thomas F Lüscher, Rodolphe Fischmeister, David A Kass, John C Burnett, Jr, Adrian J Hobbs, Harald H H W Schmidt
Pubblicato in: Cardivascular Research, 2021, ISSN 1755-3245
Editore: Oxford Academic
DOI: 10.1093/cvr/cvab240

Online bias-aware disease module mining with ROBUST-Web

Autori: Suryadipto Sarkar, Marta Lucchetta, Andreas Maier, Mohamed M Abdrabbou, Jan Baumbach, Markus List, Martin H Schaefer, David B Blumenthal
Pubblicato in: Bioinformatics, Numero Volume 39, Numero 6, 2023, ISSN 1367-4811
Editore: Oxford University Press
DOI: 10.1093/bioinformatics/btad345

Un-biased housekeeping gene panel selection for high-validity gene expression analysis

Autori: Casas, A.I., Hassan, A.A., Manz, Q. et al.
Pubblicato in: Sci Rep 12, 12324, 2022, ISSN 2045-2322
Editore: Nature Publishing Group
DOI: 10.1038/s41598-022-15989-8

Re-Addressing Dementia by Network Medicine and Mechanism-Based Molecular Endotypes

Autori: Pacheco Pachado, Mayra; Casas, Ana I.; Elbatreek, Mahmoud H.; Nogales, Cristian; Guney, Emre; Espay, Alberto J.; Schmidt, Harald H.H.W.
Pubblicato in: Journal of Alzheimer's Disease, Numero vol. 96, no. 1, 2023, Pagina/e pp. 47-56, 2023, ISSN 1387-2877
Editore: IOS Press
DOI: 10.3233/jad-230694

netDx: Software for building interpretable patient classifiers by multi-'omic data integration using patient similarity networks

Autori: Shraddha Pai, Philipp Weber, Ruth Isserlin, Hussam Kaka, Shirley Hui, Muhammad Ahmad Shah, Luca Giudice, Rosalba Giugno, Anne Krogh Nøhr, Jan Baumbach, Gary D. Bader
Pubblicato in: F1000Research, Numero 9, 2020, Pagina/e 1239, ISSN 2046-1402
Editore: F1000 Research Ltd.
DOI: 10.12688/f1000research.26429.2

Endothelial reactive oxygen-forming NADPH oxidase 5 is a possible player in diabetic aortic aneurysm but not atherosclerosis

Autori: Florence Ho; Anna M. D. Watson; Mahmoud H. Elbatreek; Pamela W. M. Kleikers; Waheed Khan; Karly C. Sourris; Aozhi Dai; Jay Jha; Harald H. H. W. Schmidt; Karin A. M. Jandeleit-Dahm
Pubblicato in: Sci Rep 12, 11570, 2022, ISSN 2045-2322
Editore: Nature Publishing Group
DOI: 10.1038/s41598-022-15706-5

NOX5-induced uncoupling of endothelial NO synthase is a causal mechanism and theragnostic target of an age-related hypertension endotype

Autori: Mahmoud H. Elbatreek, Sepideh Sadegh, Elisa Anastasi, Emre Guney, Cristian Nogales, Tim Kacprowski, Ahmed A. Hassan, Andreas Teubner, Po-Hsun Huang, Chien-Yi Hsu, Paul M. H. Schiffers, Ger M. Janssen, Pamela W. M. Kleikers, Anil Wipat, Jan Baumbach, Jo G. R. De Mey, Harald H. H. W. Schmidt
Pubblicato in: PLOS Biology, Numero 18/11, 2020, Pagina/e e3000885, ISSN 1545-7885
Editore: PLOS Biology
DOI: 10.1371/journal.pbio.3000885

Exploring the SARS-CoV-2 virus-host-drug interactome for drug repurposing

Autori: Sepideh Sadegh, Julian Matschinske, David B. Blumenthal, Gihanna Galindez, Tim Kacprowski, Markus List, Reza Nasirigerdeh, Mhaned Oubounyt, Andreas Pichlmair, Tim Daniel Rose, Marisol Salgado-Albarrán, Julian Späth, Alexey Stukalov, Nina K. Wenke, Kevin Yuan, Josch K. Pauling, Jan Baumbach
Pubblicato in: Nature Communications, Numero 11/1, 2020, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-020-17189-2

Robust disease module mining via enumeration of diverse prize-collecting Steiner trees

Autori: Judith Bernett, Dominik Krupke, Sepideh Sadegh, Jan Baumbach, Sándor P Fekete, Tim Kacprowski, Markus List, David B Blumenthal
Pubblicato in: Bioinformatics, 2022, ISSN 1460-2059
Editore: Oxford Academics

Online in silico validation of disease and gene sets, clusterings, or subnetworks with DIGEST

Autori: Klaudia Adamowicz; Andreas Maier; Jan Baumbach; David Blumenthal
Pubblicato in: Briefings in Bioinformatics, Numero Volume 23, Numero 4, 2022, ISSN 1477-4054
Editore: Oxford University Press
DOI: 10.14293/s2199-1006.1.sor-.ppp32eqz.v1

Lacking mechanistic disease definitions and corresponding association data hamper progress in network medicine and beyond

Autori: Sepideh Sadegh; James Skelton; Elisa Anastasi; Andreas Maier; Klaudia Adamowicz; Anna Möller; Nils M. Kriege; Jaanika Kronberg; Toomas Haller; Tim Kacprowski; Anil Wipat; Jan Baumbach; David B. Blumenthal
Pubblicato in: Nat Commun, Numero 14, 1662, 2023, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-023-37349-4

Network and Systems Medicine: Position Paper of the European Collaboration on Science and Technology Action on Open Multiscale Systems Medicine

Autori: Blandine Comte, Jan Baumbach, Arriel Benis, José Basílio, Nataša Debeljak, Åsmund Flobak, Christian Franken, Nissim Harel, Feng He, Martin Kuiper, Juan Albino Méndez Pérez, Estelle Pujos-Guillot, Tadeja Režen, Damjana Rozman, Johannes A. Schmid, Jeanesse Scerri, Paolo Tieri, Kristel Van Steen, Sona Vasudevan, Steven Watterson, Harald H.H.W. Schmidt
Pubblicato in: Network and Systems Medicine, Numero 3/1, 2020, Pagina/e 67-90, ISSN 2690-5949
Editore: Mary Ann Liebert, Inc.
DOI: 10.1089/nsm.2020.0004

Network medicine for disease module identification and drug repurposing with the NeDRex platform

Autori: Sepideh Sadegh, James Skelton, Elisa Anastasi, Judith Bernett, David B. Blumenthal, Gihanna Galindez, Marisol Salgado-Albarrán, Olga Lazareva, Keith Flanagan, Simon Cockell, Cristian Nogales, Ana I. Casas, Harald H. H. W. Schmidt, Jan Baumbach, Anil Wipat & Tim Kacprowski
Pubblicato in: Nature Communications, 2021, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-021-27138-2

Molecular networks in Network Medicine: Development and applications

Autori: Edwin K. Silverman, Harald H. H. W. Schmidt, Eleni Anastasiadou, Lucia Altucci, Marco Angelini, Lina Badimon, Jean-Luc Balligand, Giuditta Benincasa, Giovambattista Capasso, Federica Conte, Antonella Di Costanzo, Lorenzo Farina, Giulia Fiscon, Laurent Gatto, Michele Gentili, Joseph Loscalzo, Cinzia Marchese, Claudio Napoli, Paola Paci, Manuela Petti, John Quackenbush, Paolo Tieri, Davide Viggiano,
Pubblicato in: Wiley Interdisciplinary Reviews: Systems Biology and Medicine, 2020, Pagina/e e1489, ISSN 1939-5094
Editore: John Wiley and Sons Inc.
DOI: 10.1002/wsbm.1489

Isoform-selective NADPH oxidase inhibitor panel for pharmacological target validation

Autori: Vu Thao-Vi Dao, Mahmoud H. Elbatreek, Sebastian Altenhöfer, Ana I. Casas, Mayra P. Pachado, Christopher T. Neullens, Ulla G. Knaus, Harald H.H.W. Schmidt
Pubblicato in: Free Radical Biology and Medicine, Numero 148, 2020, Pagina/e 60-69, ISSN 0891-5849
Editore: Elsevier BV
DOI: 10.1016/j.freeradbiomed.2019.12.038

Cancer driver drug interaction explorer

Autori: Michael Hartung; Elisa Anastasi; Zeinab M Mamdouh; Cristian Nogales; Harald H H W Schmidt; Jan Baumbach; Olga Zolotareva; Markus List
Pubblicato in: Nucleic Acids Research, Numero Volume 50, Numero W1, 5 July 2022,, 2022, Pagina/e Pages W138–W144, ISSN 0305-1048
Editore: Oxford University Press
DOI: 10.1093/nar/gkac384

Thromboinflammation in Brain Ischemia: Recent Updates and Future Perspectives

Autori: Simon F. De Meyer, PhD, Friederike Langhauser, PhD, Steffen Haupeltshofer, PhD, Christoph Kleinschnitz, MD, PhD, Ana I. Casas, PhD
Pubblicato in: Stroke, Numero 53(5), 2022, Pagina/e 1487-1499, ISSN 1524-4628
Editore: AHA/ASA Journals
DOI: 10.1161/strokeaha.122.038733

Network pharmacology: curing causal mechanisms instead of treating symptoms.

Autori: Nogales C, Mamdouh ZM, List M, Kiel C, Casas AI, and Schmidt HHHW.
Pubblicato in: Trends in Pharmacological Sciences, Numero Vol. 43, No. 2, 2021, ISSN 1873-3735
Editore: Cell Press - Elsevier Inc.
DOI: 10.1016/j.tips.2021.11.004

NeDRex - an integrative and interactive network medicine platform for drug repurposing

Autori: Sadegh S et al.
Pubblicato in: Drgu Repurposing Central - Science Open, Numero Conference name: RExPO22 Conference date: 2-3 September, 2022, 2022
Editore: Drgu Repurposing Central - Science Open
DOI: 10.14293/s2199-1006.1.sor-.pppy90r8.v1

A plug-and-play solution to bring network exploration and drug repurposing to biomedical web platforms

Autori: Maier A et al.
Pubblicato in: Drug Repurposing Central - Science Open, Numero Conference name: RExPO22 Conference date: 2-3 September, 2022, 2022
Editore: Drug Repurposing Central - Science Open
DOI: 10.14293/s2199-1006.1.sor-.pppvbd8w.v1

Network pharmacology and drug repurposing pave the way for precision oncology

Autori: Mamdouh Z et al.
Pubblicato in: Drug Repurposing Central - Science Open, Numero Conference name: RExPO22 Conference date: 2-3 September, 2022, 2022
Editore: Drug Repurposing Central - Science Open
DOI: 10.14293/s2199-1006.1.sor-.pppdgtlb.v1

Repurposing soluble guanylate cyclase stimulators from one to another isoform within the ROCG signalling module

Autori: Alexandra Petraina, Mahmoud H Elbatreek and Christin Elgert et al.
Pubblicato in: Drug Repurposing Central - ScienceOpen, Numero Conference name: RExPO22 Conference date: 2-3 September, 2022, 2022
Editore: Drug Repurposing Central - ScienceOpen
DOI: 10.14293/s2199-1006.1.sor-.pppux7cj.v1

Nitric Oxide Synthase Inhibitors into the Clinic at Last

Autori: Vu Thao-Vi Dao, Mahmoud H. Elbatreek, Thomas Fuchß, Ulrich Grädler, Harald H. H. W. Schmidt, Ajay M. Shah, Alan Wallace, Richard Knowles
Pubblicato in: Reactive Oxygen Species - Network Pharmacology and Therapeutic Applications, Numero 264, 2021, Pagina/e 169-204, ISBN 978-3-030-68509-6
Editore: Springer International Publishing
DOI: 10.1007/164_2020_382

NOX Inhibitors: From Bench to Naxibs to Bedside

Autori: Mahmoud H. Elbatreek, Hermann Mucke, Harald H. H. W. Schmidt
Pubblicato in: Reactive Oxygen Species - Network Pharmacology and Therapeutic Applications, Numero 264, 2021, Pagina/e 145-168, ISBN 978-3-030-68509-6
Editore: Springer International Publishing
DOI: 10.1007/164_2020_387

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