Drug-target network in myocardial infarction reveals multiple side effects of unrelated drugs

Scientific Reports

Volumn 1, Issue , 2011, Pages

  Azuaje, Francisco J ^a   Zhang, Lu ^a   Devaux, Yvan ^a   Wagner, Daniel R ^a,b  

^a LUXEMBOURG INSTITUTE OF HEALTH   (Luxembourg)

^b Centre Hospitalier   (Luxembourg)

Author keywords

[No Author keywords available]

Indexed keywords

CARDIOTONIC AGENT;

ARTICLE; BIOLOGICAL MODEL; CHEMICALLY INDUCED DISORDER; COMPUTER SIMULATION; DRUG TOXICITY; HEART INFARCTION; HUMAN; METABOLISM;

CARDIOTONIC AGENTS; COMPUTER SIMULATION; DRUG TOXICITY; HUMANS; MODELS, CARDIOVASCULAR; MYOCARDIAL INFARCTION;

EID: 84857644340     PISSN: None     EISSN: 20452322     Source Type: Journal    
DOI: 10.1038/srep00052     Document Type: Article

References (37)

1. Arrell, D. K. & Terzic, A. Network systems biology for drug discovery. Clin Pharmacol Ther 88, 120-125 (2010).
2. Dudley, J. T., Schadt, E., Sirota, M., Butte, A. J. & Ashley, E. Drug discovery in a multidimensional world: systems, patterns, and networks. J Cardiovasc Transl Res 3, 438-447 (2010).
3. Keiser, M. J. et al. Predicting new molecular targets for known drugs. Nature 462, 175-181 (2009).
4. Kinnings, S. L., Xie, L., Fung, K. H., Jackson, R. M. & Bourne, P. E. The Mycobacterium tuberculosis drugome and its polypharmacological implications. PLoS Comput Biol 6, e1000976 (2010).
5. Yildirim, M. A., Goh, K. I., Cusick, M. E., Barabasi, A. L. & Vidal, M. Drug-target network. Nat Biotechnol 25, 1119-1126 (2007). (Pubitemid 47538114)
6. Zhao, S. & Li, S. Network-based relating pharmacological and genomic spaces for drug target identification. PLoS One 5, e11764 (2010).
7. Takarabe, M., Shigemizu, D., Kotera, M., Goto, S. & Kanehisa, M. Characterization and classification of adverse drug interactions. Genome Inform 22, 167-175 (2010).
8. Klein, T. E. et al. Integrating genotype and phenotype information: an overview of the PharmGKB project. Pharmacogenetics Research Network and Knowledge Base. Pharmacogenomics J 1, 167-170 (2001). (Pubitemid 33756654)
9. Knox, C. et al. DrugBank 3. 0: a comprehensive resource for 'omics' research on drugs. Nucleic Acids Res 39, D1035-1041 (2011).
10. Azuaje, F., Devaux, Y. & Wagner, D. R. Coordinated modular functionality and prognostic potential of a heart failure biomarker-driven interaction network. BMC Syst Biol 4, 60 (2010).
11. Ozgur, A., Vu, T., Erkan, G. & Radev, D. R. Identifying gene-disease associations using centrality on a literature mined gene-interaction network. Bioinformatics 24, i277-285 (2008).
12. Yu, H., Kim, P. M., Sprecher, E., Trifonov, V. & Gerstein, M. The importance of bottlenecks in protein networks: correlation with gene essentiality and expression dynamics. PLoS Comput Biol 3, e59 (2007).
13. Goncalves, J. P., Graos, M. & Valente, A. X. POLAR MAPPER: a computational tool for integrated visualization of protein interaction networks and mRNA expression data. J R Soc Interface 6, 881-896 (2009).
14. Ashburner, M. et al. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 25, 25-29 (2000). (Pubitemid 30257031)
15. Kanehisa, M., Goto, S., Furumichi, M., Tanabe, M. & Hirakawa, M. KEGG for representation and analysis of molecular networks involving diseases and drugs. Nucleic Acids Res 38, D355-360 (2010).
16. Eis, P. S. et al. Accumulation of miR-155 and BIC RNA in human B cell lymphomas. Proc Natl Acad Sci USA 102, 3627-3632 (2005). (Pubitemid 40354662)
17. Godlewski, J. et al. MicroRNA-451 regulates LKB1/AMPK signaling and allows adaptation to metabolic stress in glioma cells. Mol Cell 37, 620-632 (2010).
18. Dostie, J., Mourelatos, Z., Yang, M., Sharma, A. & Dreyfuss, G. Numerous microRNPs in neuronal cells containing novel microRNAs. RNA 9, 180-186 (2003). (Pubitemid 36206286)
19. Bostjancic, E., Zidar, N., Stajer, D. & Glavac, D. MicroRNAs miR-1, miR-133a, miR-133b and miR-208 are dysregulated in human myocardial infarction. Cardiology 115, 163-169 (2010).
20. Zhang, X. et al. Synergistic effects of the GATA-4-mediated miR-144/451 cluster in protection against simulated ischemia/reperfusion-induced cardiomyocyte death. J Mol Cell Cardiol 49, 841-850 (2010).
21. Bates, E. R., Lau, W. C. & Angiolillo, D. J. Clopidogrel-drug interactions. J AmColl Cardiol 57, 1251-1263 (2011).
22. Gislason, G. H. et al. Increased mortality and cardiovascular morbidity associated with use of nonsteroidal anti-inflammatory drugs in chronic heart failure. Arch Intern Med 169, 141-149 (2009).
23. Graham, D. J. et al. Risk of acute myocardial infarction, stroke, heart failure, and death in elderly Medicare patients treated with rosiglitazone or pioglitazone. JAMA 304, 411-418 (2010).
24. Abenhaim, L. et al. Appetite-suppressant drugs and the risk of primary pulmonary hypertension. International Primary Pulmonary Hypertension Study Group. N Engl J Med 335, 609-616 (1996). (Pubitemid 26277950)
25. Casassus, B. Drug scandal exposes French regulators to public ire. Nat Med 17, 144 (2011).
26. Connolly, H. M. et al. Valvular heart disease associated with fenfluraminephentermine. N Engl J Med 337, 581-588 (1997). (Pubitemid 27360757)
27. Frachon, I. et al. Benfluorex and unexplained valvular heart disease: a case-control study. PLoS One 5, e10128 (2010).
28. Salwinski, L. et al. The Database of Interacting Proteins: 2004 update. Nucleic Acids Res 32, D449-451 (2004). (Pubitemid 38081696)
29. Aranda, B. et al. The IntAct molecular interaction database in 2010. Nucleic Acids Res 38, D525-531 (2010).
30. Ceol, A. et al. MINT, the molecular interaction database: 2009 update. Nucleic Acids Res 38, D532-539 (2010).
31. Salwinski, L. et al. Recurated protein interaction datasets. NatMethods 6, 860-861 (2009).
32. Griffiths-Jones, S., Grocock, R. J., van Dongen, S., Bateman, A. & Enright, A. J. miRBase: microRNA sequences, targets and gene nomenclature. Nucleic Acids Res 34, D140-144 (2006).
33. Cline, M. S. et al. Integration of biological networks and gene expression data using Cytoscape. Nat Protoc 2, 2366-2382 (2007).
34. Assenov, Y., Ramirez, F., Schelhorn, S. E., Lengauer, T. & Albrecht, M. Computing topological parameters of biological networks. Bioinformatics 24, 282-284 (2008).
35. Random Network Plugin [http://sites. google. com/site/ randomnetworkplugin/].
36. Al-Shahrour, F. et al. Babelomics: advanced functional profiling of transcriptomics, proteomics and genomics experiments. Nucleic Acids Res 36, W341-346 (2008).
37. Statistica. version 8. 0 [http: www. statsoft. com]