Integrative pathway-centric modeling of ventricular dysfunction after myocardial infarction

PLoS ONE

Volumn 5, Issue 3, 2010, Pages

  Azuaje, Francisco ^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

LEUCINE; BIOLOGICAL MARKER;

AMINO ACID SYNTHESIS; ARTICLE; B LYMPHOCYTE ACTIVATION; CLINICAL ARTICLE; CONTROLLED STUDY; GENE EXPRESSION PROFILING; HEART INFARCTION; HEART VENTRICLE FUNCTION; HUMAN; OUTCOME ASSESSMENT; PROGNOSIS; SIGNAL TRANSDUCTION; ALGORITHM; BIOLOGICAL MODEL; COMPUTER PROGRAM; FEMALE; GENE EXPRESSION REGULATION; GENETIC TRANSCRIPTION; HEART FAILURE; HEART LEFT VENTRICLE FUNCTION; MALE; METABOLISM; PATHOLOGY; PATHOPHYSIOLOGY; REGISTER; TREATMENT OUTCOME;

ALGORITHMS; BIOLOGICAL MARKERS; FEMALE; GENE EXPRESSION REGULATION; HEART FAILURE; HUMANS; MALE; MODELS, BIOLOGICAL; MYOCARDIAL INFARCTION; PROGNOSIS; REGISTRIES; SOFTWARE; TRANSCRIPTION, GENETIC; TREATMENT OUTCOME; VENTRICULAR DYSFUNCTION, LEFT;

EID: 77950540760     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0009661     Document Type: Article

References (30)

1. Sun Y (2009) Myocardial repair/remodelling following infarction: roles of local factors. Cardiovasc Res 81: 482-490
2. Torabi A, Cleland JG, Khan NK, Loh PH, Clark AL, et al. (2008) The timing of development and subsequent clinical course of heart failure after a myocardial infarction. Eur Heart J 29: 859-870
3. Weir RA, McMurray JJ (2006) Epidemiology of heart failure and left ventricular dysfunction after acute myocardial infarction. Curr Heart Fail Rep 3: 175-180
4. Braunwald E (2008) Biomarkers in heart failure. N Engl J Med 358: 2148-2159
5. Kittleson MM, Hare JM (2005) Molecular signature analysis: using the myocardial transcriptome as a biomarker in cardiovascular disease. Trends Cardiovasc Med 15: 130-138
6. Wingrove JA, Daniels SE, Sehnert AJ, Tingley W, Elashoff MR, et al. (2008) Correlation of Peripheral-Blood Gene Expression With the Extent of Coronary Artery Stenosis. Circ Cardiovasc Genet 1: 31-38.
7. Al-Shahrour F, Minguez P, Tarraga J, Montaner D, Alloza E, et al. (2006) BABELOMICS: a systems biology perspective in the functional annotation of genome-scale experiments. Nucleic Acids Res.34: W472-476.
8. Azuaje F, Devaux Y, Wagner D (2009) Computational biology for cardiovascular biomarker discovery. Brief Bioinform 10: 367-377
9. Subramanian A, Tamayo P, Mootha VK, Mukherjee S, Ebert BL, et al. (2005) Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci USA 102: 15545-15550.
10. Chuang HY, Lee E, Liu YT, Lee D, Ideker T (2007) Network-based classification of breast cancer metastasis. Mol Syst Biol 3: 140.
11. Lee E, Chuang HY, Kim JW, Ideker T, Lee D (2008) Inferring pathway activity toward precise disease classification. PLoS Comput Biol 4: e1000217.
12. Lim WK, Lyashenko E, Califano A (2009) Master regulators used as breast cancer metastasis classifier. Pac Symp Biocomput 2009: 504-515
13. Efron B, Tibshirani R (2007) On testing the significance of sets of genes. The Annals of Applied Statistics 1: 107-129.
14. Ideker T, Sharan R (2008) Protein networks in disease. Genome Res 18: 644-652
15. Camargo A, Azuaje F (2008) Identification of dilated cardiomyopathy signature genes through gene expression and network data integration. Genomics 92: 404-413
16. Cleary JG, Trigg LE (1995) K*: An Instance- based Learner Using an Entropic Distance Measure. Proceedings of the 12th International Conference on Machine learning. pp 108-114.
17. Le Brigand K, Russell R, Moreilhon C, Rouillard JM, Jost B, et al. (2006) An open-access long oligonucleotide microarray resource for analysis of the human and mouse transcriptomes. Nucleic Acids Res 34: e87.
18. StatSoft Inc. (2008) Statistica (data analysis software system), version 8.0. www.statsoft.com.
19. Montaner D, Tárraga J, Huerta-Cepas J, Burguet J, Vaquerizas JM, et al. (2006) Next station in microarray data analysis: GEPAS. Nucleic Acids Res 34(Web Server issue): W486-91.
20. Frank E, Hall M, Trigg L, Holmes G, Witten IH (2004) Data mining in bioinformatics using Weka. Bioinformatics 20: 2479-2481
21. Zambon AC, McDearmon EL, Salomonis N, Vranizan KM, Johansen KL, et al. (2003) Time- and exercise-dependent gene regulation in human skeletal muscle. Genome Biol 4: R61.
22. Tang CW, Maya-Mendoza A, Martin C, Zeng K, Chen S, et al. (2008) The integrity of a lamin-B1-dependent nucleoskeleton is a fundamental determinant of RNA synthesis in human cells. J Cell Sci 121(Pt 7): 1014-1024
23. Malhas A, Lee CF, Sanders R, Saunders NJ, Vaux DJ (2007) Defects in lamin B1 expression or processing affect interphase chromosome position and gene expression. J Cell Biol 176: 593-603.
24. Sun S, Xu MZ, Poon RT, Day PJ, Luk JM (2010) Circulating Lamin B1 (LMNB1) biomarker detects early stages of liver cancer in patients. J Proteome Res 9: 70-78
25. Wang W, Eddy R, Condeelis J (2007) The cofilin pathway in breast cancer invasion and metastasis. Nat Rev Cancer 7: 429-440
26. Khan SQ, Ng K, Dhillon O, Kelly D, Quinn P, et al. (2009) Growth differentiation factor-15 as a prognostic marker in patients with acute myocardial infarction. Eur Heart J 30: 1057-1065
27. Liesz A, Suri-Payer E, Veltkamp C, Doerr H, Sommer C, et al. (2009) Regulatory T cells are key cerebroprotective immunomodulators in acute experimental stroke. Nat Med 15: 192-199
28. Takeda A, Baffi JZ, Kleinman ME, Cho WG, Nozaki M, et al. (2009) CCR3 is a target for age-related macular degeneration diagnosis and therapy. Nature 460: 225-230
29. Habashy HO, Powe DG, Rakha EA, Ball G, Macmillan RD, et al. (2009) The prognostic significance of PELP1 expression in invasive breast cancer with emphasis on the ER-positive luminal-like subtype. Breast Cancer Res Treat. In press.
30. Grivas PD, Tzelepi V, Sotiropoulou-Bonikou G, Kefalopoulou Z, Papavassiliou AG, et al. (2009) Expression of ERalpha, ERbeta and coregulator PELP1/MNAR in colorectal cancer: prognostic significance and clinicopathologic correlations. Cell Oncol 31: 235-247