Systems Biology Elucidates Common Pathogenic Mechanisms between Nonalcoholic and Alcoholic-Fatty Liver Disease

PLoS ONE

Volumn 8, Issue 3, 2013, Pages

  Sookoian, Silvia ^a   Pirola, Carlos J ^a  

^a UNIVERSIDAD DE BUENOS AIRES   (Argentina)

Author keywords

[No Author keywords available]

Indexed keywords

ALCOHOLIC FATTY LIVER; ARTICLE; CARDIOVASCULAR DISEASE; CLINICAL FEATURE; COMPLEX FORMATION; DISEASE ASSOCIATION; DISEASE CLASSIFICATION; GENE ACTIVATION; GENE REGULATORY NETWORK; GENETIC MODEL; INSULIN RESISTANCE; MATHEMATICAL MODEL; NONALCOHOLIC FATTY LIVER; ONCOGENE; PROTEIN PROTEIN INTERACTION; SIGNAL TRANSDUCTION; SYSTEMS BIOLOGY;

ALCOHOLS; DATA MINING; FATTY LIVER; FATTY LIVER, ALCOHOLIC; GENE EXPRESSION REGULATION; GENOMICS; HUMANS; INSULIN; INSULIN RESISTANCE; MICRORNAS; SIGNAL TRANSDUCTION; SYSTEMS BIOLOGY; TRANSCRIPTION, GENETIC;

EID: 84874851698     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0058895     Document Type: Article

References (33)

1. Chalasani N, Younossi Z, Lavine JE, Diehl AM, Brunt EM, et al. (2012) The diagnosis and management of non-alcoholic fatty liver disease: practice Guideline by the American Association for the Study of Liver Diseases, American College of Gastroenterology, and the American Gastroenterological Association. Hepatology 55: 2005-2023 doi:10.1002/hep.25762.
2. O'Shea RS, Dasarathy S, McCullough AJ, (2010) Alcoholic liver disease. Hepatology 51: 307-328 10.1002/hep.23258.
3. Kleiner DE, Brunt EM, (2012) Nonalcoholic fatty liver disease: pathologic patterns and biopsy evaluation in clinical research. Semin Liver Dis 32: 3-13 10.1055/s-0032-1306421.
4. Lefkowitch JH, (2005) Morphology of alcoholic liver disease. Clin Liver Dis 9: 37-53 doi:1016/j.cld.2004.11.001.
5. Ludwig J, Viggiano TR, McGill DB, Oh BJ, (1980) Nonalcoholic steatohepatitis: Mayo Clinic experiences with a hitherto unnamed disease. Mayo Clin Proc 55: 434-438.
6. Romeo S, Kozlitina J, Xing C, Pertsemlidis A, Cox D, et al. (2008) Genetic variation in PNPLA3 confers susceptibility to nonalcoholic fatty liver disease. Nat Genet 40: 1461-1465 doi:10.1038/ng.257.
7. Sookoian S, Pirola CJ, (2011) Meta-analysis of the influence of I148M variant of patatin-like phospholipase domain containing 3 gene (PNPLA3) on the susceptibility and histological severity of nonalcoholic fatty liver disease. Hepatology 53: 1883-1894 doi:10.1002/hep.24283 doi.
8. Tian C, Stokowski RP, Kershenobich D, Ballinger DG, Hinds DA, (2010) Variant in PNPLA3 is associated with alcoholic liver disease. Nat Genet 42: 21-23 doi:10.1038/ng.488.
9. Sookoian S, Castano GO, Burgueno AL, Gianotti TF, Rosselli MS, et al. (2009) A nonsynonymous gene variant in the adiponutrin gene is associated with nonalcoholic fatty liver disease severity. J Lipid Res 50: 2111-2116 doi:10.1194/jlr.P900013-JLR200.
10. Trepo E, Gustot T, Degre D, Lemmers A, Verset L, et al. (2011) Common polymorphism in the PNPLA3/adiponutrin gene confers higher risk of cirrhosis and liver damage in alcoholic liver disease. J Hepatol 55: 906-912 doi:10.1016/j.jhep.2011.01.028.
11. Stickel F, Buch S, Lau K, zu Schwabedissen HM, Berg T, et al. (2011) Genetic variation in the PNPLA3 gene is associated with alcoholic liver injury in caucasians. Hepatology 53: 86-95 doi:10.1002/hep.24017.
12. Syn WK, Teaberry V, Choi SS, Diehl AM, (2009) Similarities and differences in the pathogenesis of alcoholic and nonalcoholic steatohepatitis. Semin Liver Dis 29: 200-210 doi:10.1055/s-0029-121437.
13. Barbosa-Silva A, Fontaine JF, Donnard ER, Stussi F, Ortega JM, et al. (2011) PESCADOR, a web-based tool to assist text-mining of biointeractions extracted from PubMed queries. BMC Bioinformatics 12: 435 doi:10.1186/1471-2105-12-435.
14. Barbosa-Silva A, Soldatos TG, Magalhaes IL, Pavlopoulos GA, Fontaine JF, et al. (2010) LAITOR--Literature Assistant for Identification of Terms co-Occurrences and Relationships. BMC Bioinformatics 11: 70 doi:10.1186/1471-2105-11-70.
15. Kaimal V, Bardes EE, Tabar SC, Jegga AG, Aronow BJ (2010) ToppCluster: a multiple gene list feature analyzer for comparative enrichment clustering and network-based dissection of biological systems. Nucleic Acids Res 38: W96-102. gkq418 [pii]; 10.1093/nar/gkq418 [doi].
16. Chen J, Aronow BJ, Jegga AG, (2009) Disease candidate gene identification and prioritization using protein interaction networks. BMC Bioinformatics 10: 73 doi:10.1186/1471-2105-10-73.
17. Aerts S, Lambrechts D, Maity S, Van LP, Coessens B, et al. (2006) Gene prioritization through genomic data fusion. Nat Biotechnol 24: 537-544 doi:10.1038/nbt1203.
18. Tranchevent LC, Barriot R, Yu S, Van VS, Van LP, et al. (2008) ENDEAVOUR update: a web resource for gene prioritization in multiple species. Nucleic Acids Res 36: W377-W384 doi:10.1093/nar/gkn325.
19. Sookoian S, Gianotti TF, Gemma C, Burgueno AL, Pirola CJ, (2010) Role of genetic variation in insulin-like growth factor 1 receptor on insulin resistance and arterial hypertension. J Hypertens 28: 1194-1202 doi:10.1097/HJH.0b013e328337f6d5.
20. Sookoian S, Gemma C, Pirola CJ, (2010) Influence of hepatocyte nuclear factor 4alpha (HNF4alpha) gene variants on the risk of type 2 diabetes: a meta-analysis in 49,577 individuals. Mol Genet Metab 99: 80-89 doi:10.1016/j.ymgme.2009.08.004.
21. Pavlopoulos GA, Hooper SD, Sifrim A, Schneider R, Aerts J, (2011) Medusa: A tool for exploring and clustering biological networks. BMC Res Notes 4: 384 doi:10.1186/1756-0500-4-384.
22. Shannon P, Markiel A, Ozier O, Baliga NS, Wang JT, et al. (2003) Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res 13: 2498-2504 doi:10.1101/gr.1239303.
23. Sookoian S, Rosselli MS, Gemma C, Burgueno AL, Fernandez GT, et al. (2010) Epigenetic regulation of insulin resistance in nonalcoholic fatty liver disease: impact of liver methylation of the peroxisome proliferator-activated receptor gamma coactivator 1alpha promoter. Hepatology 52: 1992-2000 doi:10.1002/hep.23927.
24. Pirola CJ, Fernandez GT, Burgueno AL, Rey-Funes M, Loidl CF, et al. (2012) Epigenetic modification of liver mitochondrial DNA is associated with histological severity of nonalcoholic fatty liver disease. Gutdoi:10.1136/gutjnl-2012-302962.
25. Wilfred de Alwis NM, Day CP, (2007) Genetics of alcoholic liver disease and nonalcoholic fatty liver disease. Semin Liver Dis 27: 44-54 doi:10.1055/s-2006-960170.
26. Sookoian S, Castano G, Gemma C, Gianotti TF, Pirola CJ, (2007) Common genetic variations in CLOCK transcription factor are associated with nonalcoholic fatty liver disease. World J Gastroenterol 13: 4242-4248.
27. Kukreja RC, Yin C, Salloum FN, (2011) MicroRNAs: new players in cardiac injury and protection. Mol Pharmacol 80: 558-564 doi:10.1124/mol.111.073528.
28. Sato F, Tsuchiya S, Meltzer SJ, Shimizu K, (2011) MicroRNAs and epigenetics. FEBS J 278: 1598-1609 doi:10.1111/j.1742-4658.2011.08089.x.
29. Sorensen HT, Mellemkjaer L, Jepsen P, Thulstrup AM, Baron J, et al. (2003) Risk of cancer in patients hospitalized with fatty liver: a Danish cohort study. J Clin Gastroenterol 36: 356-359.
30. Hwang ST, Cho YK, Park JH, Kim HJ, Park DI, et al. (2010) Relationship of non-alcoholic fatty liver disease to colorectal adenomatous polyps. J Gastroenterol Hepatol 25: 562-567 doi:10.1111/j.1440-1746.2009.06117.x.
31. Wong VW, Wong GL, Tsang SW, Fan T, Chu WC, et al. (2011) High prevalence of colorectal neoplasm in patients with non-alcoholic steatohepatitis. Gut 60: 829-836 doi:10.1136/gut.2011.237974.
32. Guzman G, Brunt EM, Petrovic LM, Chejfec G, Layden TJ, et al. (2008) Does nonalcoholic fatty liver disease predispose patients to hepatocellular carcinoma in the absence of cirrhosis. Arch Pathol Lab Med 132: 1761-1766 doi:10.1043/1543-2165-132.11.1761.
33. Hooper SD, Bork P, (2005) Medusa: a simple tool for interaction graph analysis. Bioinformatics 21: 4432-4433 doi:10.1093/bioinformatics/bti696.