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

Resultado final

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

Publicaciones

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

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

On the Clinical Pharmacology of Reactive Oxygen Species

Autores: 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
Publicado en: Pharmacological Reviews, Edición 72/4, 2020, Página(s) 801-828, ISSN 0031-6997
Editor: American Society for Pharmacology and Experimental Therapeutics
DOI: 10.1124/pr.120.019422

De Novo and Supervised Endophenotyping Using Network-Guided Ensemble Learning

Autores: Simon J. Larsen, Harald H.H.W. Schmidt, Jan Baumbach
Publicado en: Systems Medicine, Edición 3/1, 2020, Página(s) 8-21, ISSN 2573-3370
Editor: Network and Systems Medicine
DOI: 10.1089/sysm.2019.0008

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

Autores: 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
Publicado en: Cardivascular Research, 2021, ISSN 1755-3245
Editor: Oxford Academic
DOI: 10.1093/cvr/cvab240

Online bias-aware disease module mining with ROBUST-Web

Autores: Suryadipto Sarkar, Marta Lucchetta, Andreas Maier, Mohamed M Abdrabbou, Jan Baumbach, Markus List, Martin H Schaefer, David B Blumenthal
Publicado en: Bioinformatics, Edición Volume 39, Edición 6, 2023, ISSN 1367-4811
Editor: Oxford University Press
DOI: 10.1093/bioinformatics/btad345

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

Autores: Casas, A.I., Hassan, A.A., Manz, Q. et al.
Publicado en: Sci Rep 12, 12324, 2022, ISSN 2045-2322
Editor: Nature Publishing Group
DOI: 10.1038/s41598-022-15989-8

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

Autores: Pacheco Pachado, Mayra; Casas, Ana I.; Elbatreek, Mahmoud H.; Nogales, Cristian; Guney, Emre; Espay, Alberto J.; Schmidt, Harald H.H.W.
Publicado en: Journal of Alzheimer's Disease, Edición vol. 96, no. 1, 2023, Página(s) pp. 47-56, 2023, ISSN 1387-2877
Editor: IOS Press
DOI: 10.3233/jad-230694

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

Autores: 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
Publicado en: F1000Research, Edición 9, 2020, Página(s) 1239, ISSN 2046-1402
Editor: 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

Autores: 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
Publicado en: Sci Rep 12, 11570, 2022, ISSN 2045-2322
Editor: 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

Autores: 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
Publicado en: PLOS Biology, Edición 18/11, 2020, Página(s) e3000885, ISSN 1545-7885
Editor: PLOS Biology
DOI: 10.1371/journal.pbio.3000885

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

Autores: 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
Publicado en: Nature Communications, Edición 11/1, 2020, ISSN 2041-1723
Editor: Nature Publishing Group
DOI: 10.1038/s41467-020-17189-2

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

Autores: Judith Bernett, Dominik Krupke, Sepideh Sadegh, Jan Baumbach, Sándor P Fekete, Tim Kacprowski, Markus List, David B Blumenthal
Publicado en: Bioinformatics, 2022, ISSN 1460-2059
Editor: Oxford Academics

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

Autores: Klaudia Adamowicz; Andreas Maier; Jan Baumbach; David Blumenthal
Publicado en: Briefings in Bioinformatics, Edición Volume 23, Edición 4, 2022, ISSN 1477-4054
Editor: 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

Autores: 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
Publicado en: Nat Commun, Edición 14, 1662, 2023, ISSN 2041-1723
Editor: 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

Autores: 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
Publicado en: Network and Systems Medicine, Edición 3/1, 2020, Página(s) 67-90, ISSN 2690-5949
Editor: Mary Ann Liebert, Inc.
DOI: 10.1089/nsm.2020.0004

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

Autores: 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
Publicado en: Nature Communications, 2021, ISSN 2041-1723
Editor: Nature Publishing Group
DOI: 10.1038/s41467-021-27138-2

Molecular networks in Network Medicine: Development and applications

Autores: 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,
Publicado en: Wiley Interdisciplinary Reviews: Systems Biology and Medicine, 2020, Página(s) e1489, ISSN 1939-5094
Editor: John Wiley and Sons Inc.
DOI: 10.1002/wsbm.1489

Isoform-selective NADPH oxidase inhibitor panel for pharmacological target validation

Autores: 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
Publicado en: Free Radical Biology and Medicine, Edición 148, 2020, Página(s) 60-69, ISSN 0891-5849
Editor: Elsevier BV
DOI: 10.1016/j.freeradbiomed.2019.12.038

Cancer driver drug interaction explorer

Autores: Michael Hartung; Elisa Anastasi; Zeinab M Mamdouh; Cristian Nogales; Harald H H W Schmidt; Jan Baumbach; Olga Zolotareva; Markus List
Publicado en: Nucleic Acids Research, Edición Volume 50, Edición W1, 5 July 2022,, 2022, Página(s) Pages W138–W144, ISSN 0305-1048
Editor: Oxford University Press
DOI: 10.1093/nar/gkac384

Thromboinflammation in Brain Ischemia: Recent Updates and Future Perspectives

Autores: Simon F. De Meyer, PhD, Friederike Langhauser, PhD, Steffen Haupeltshofer, PhD, Christoph Kleinschnitz, MD, PhD, Ana I. Casas, PhD
Publicado en: Stroke, Edición 53(5), 2022, Página(s) 1487-1499, ISSN 1524-4628
Editor: AHA/ASA Journals
DOI: 10.1161/strokeaha.122.038733

Network pharmacology: curing causal mechanisms instead of treating symptoms.

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

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

Autores: Sadegh S et al.
Publicado en: Drgu Repurposing Central - Science Open, Edición Conference name: RExPO22 Conference date: 2-3 September, 2022, 2022
Editor: 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

Autores: Maier A et al.
Publicado en: Drug Repurposing Central - Science Open, Edición Conference name: RExPO22 Conference date: 2-3 September, 2022, 2022
Editor: 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

Autores: Mamdouh Z et al.
Publicado en: Drug Repurposing Central - Science Open, Edición Conference name: RExPO22 Conference date: 2-3 September, 2022, 2022
Editor: 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

Autores: Alexandra Petraina, Mahmoud H Elbatreek and Christin Elgert et al.
Publicado en: Drug Repurposing Central - ScienceOpen, Edición Conference name: RExPO22 Conference date: 2-3 September, 2022, 2022
Editor: Drug Repurposing Central - ScienceOpen
DOI: 10.14293/s2199-1006.1.sor-.pppux7cj.v1

Nitric Oxide Synthase Inhibitors into the Clinic at Last

Autores: Vu Thao-Vi Dao, Mahmoud H. Elbatreek, Thomas Fuchß, Ulrich Grädler, Harald H. H. W. Schmidt, Ajay M. Shah, Alan Wallace, Richard Knowles
Publicado en: Reactive Oxygen Species - Network Pharmacology and Therapeutic Applications, Edición 264, 2021, Página(s) 169-204, ISBN 978-3-030-68509-6
Editor: Springer International Publishing
DOI: 10.1007/164_2020_382

NOX Inhibitors: From Bench to Naxibs to Bedside

Autores: Mahmoud H. Elbatreek, Hermann Mucke, Harald H. H. W. Schmidt
Publicado en: Reactive Oxygen Species - Network Pharmacology and Therapeutic Applications, Edición 264, 2021, Página(s) 145-168, ISBN 978-3-030-68509-6
Editor: Springer International Publishing
DOI: 10.1007/164_2020_387

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