Evaluating diabetes and hypertension disease causality using mouse phenotypes

BMC Systems Biology

Volumn 4, Issue , 2010, Pages

  Yu, Hong ^a   Huang, Jialiang ^a   Qiao, Nan ^a   Green, Christopher D ^a   Han, Jing Dong J ^a  

^a INSTITUTE OF GENETICS AND DEVELOPMENTAL BIOLOGY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

MAMMALIA;

ANIMAL; ARTICLE; GENETIC PREDISPOSITION; GENETICS; HYPERTENSION; METABOLISM; MOUSE; NON INSULIN DEPENDENT DIABETES MELLITUS; PHENOTYPE; PROTEIN ANALYSIS; SENSITIVITY AND SPECIFICITY; SIGNAL TRANSDUCTION; SINGLE NUCLEOTIDE POLYMORPHISM; STATISTICAL MODEL;

ANIMALS; DIABETES MELLITUS, TYPE 2; GENETIC PREDISPOSITION TO DISEASE; HYPERTENSION; LIKELIHOOD FUNCTIONS; METABOLISM; MICE; PHENOTYPE; POLYMORPHISM, SINGLE NUCLEOTIDE; PROTEIN INTERACTION MAPPING; SENSITIVITY AND SPECIFICITY; SIGNAL TRANSDUCTION;

EID: 77954667628     PISSN: None     EISSN: 17520509     Source Type: Journal    
DOI: 10.1186/1752-0509-4-97     Document Type: Article

References (39)

1. WTCCC Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls. Nature 2007, 447:661-678. 10.1038/nature05911, 2719288, 17554300, WTCCC.
2. Schadt EE, Molony C, Chudin E, Hao K, Yang X, Lum PY, Kasarskis A, Zhang B, Wang S, Suver C, et al. Mapping the genetic architecture of gene expression in human liver. PLoS Biol 2008, 6:e107. 10.1371/journal.pbio.0060107, 2365981,2365981, 18462017.
3. Altshuler D, Daly MJ, Lander ES. Genetic mapping in human disease. Science 2008, 322:881-888. 10.1126/science.1156409, 2694957, 18988837.
4. McCarthy MI, Abecasis GR, Cardon LR, Goldstein DB, Little J, Ioannidis JP, Hirschhorn JN. Genome-wide association studies for complex traits: consensus, uncertainty and challenges. Nat Rev Genet 2008, 9:356-369. 10.1038/nrg2344, 18398418.
5. Lage K, Karlberg EO, Storling ZM, Olason PI, Pedersen AG, Rigina O, Hinsby AM, Tumer Z, Pociot F, Tommerup N, et al. A human phenome-interactome network of protein complexes implicated in genetic disorders. Nat Biotechnol 2007, 25:309-316. 10.1038/nbt1295, 17344885.
6. Wu X, Jiang R, Zhang MQ, Li S. Network-based global inference of human disease genes. Mol Syst Biol 2008, 4:189. 10.1038/msb.2008.27, 2424293, 18463613.
7. Kohler S, Bauer S, Horn D, Robinson PN. Walking the interactome for prioritization of candidate disease genes. Am J Hum Genet 2008, 82:949-958. 10.1016/j.ajhg.2008.02.013, 2427257, 18371930.
8. Linghu B, Snitkin ES, Hu Z, Xia Y, Delisi C. Genome-wide prioritization of disease genes and identification of disease-disease associations from an integrated human functional linkage network. Genome Biol 2009, 10:R91. 10.1186/gb-2009-10-9-r91, 2768980, 19728866.
9. Hamosh A, Scott AF, Amberger J, Bocchini C, Valle D, McKusick VA. Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders. Nucleic Acids Res 2002, 30:52-55. 10.1093/nar/30.1.52, 99152, 11752252.
10. van Driel MA, Bruggeman J, Vriend G, Brunner HG, Leunissen JA. A text-mining analysis of the human phenome. Eur J Hum Genet 2006, 14:535-542. 10.1038/sj.ejhg.5201585, 16493445.
11. Bult CJ, Eppig JT, Kadin JA, Richardson JE, Blake JA. The Mouse Genome Database (MGD): mouse biology and model systems. Nucleic Acids Res 2008, 36:D724-728. 10.1093/nar/gkm961, 2238849, 18158299.
12. Subramanian A, Tamayo P, Mootha VK, Mukherjee S, Ebert BL, Gillette MA, Paulovich A, Pomeroy SL, Golub TR, Lander ES, Mesirov JP. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci USA 2005, 102:15545-15550. 10.1073/pnas.0506580102, 1239896, 16199517.
13. Mootha VK, Lindgren CM, Eriksson KF, Subramanian A, Sihag S, Lehar J, Puigserver P, Carlsson E, Ridderstrale M, Laurila E, et al. PGC-1alpha-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes. Nature genetics 2003, 34:267-273. 10.1038/ng1180, 12808457.
14. Patti ME, Butte AJ, Crunkhorn S, Cusi K, Berria R, Kashyap S, Miyazaki Y, Kohane I, Costello M, Saccone R, et al. Coordinated reduction of genes of oxidative metabolism in humans with insulin resistance and diabetes: Potential role of PGC1 and NRF1. Proc Natl Acad Sci USA 2003, 100:8466-8471. 10.1073/pnas.1032913100, 166252, 12832613.
15. Yeger-Lotem E, Riva L, Su LJ, Gitler AD, Cashikar AG, King OD, Auluck PK, Geddie ML, Valastyan JS, Karger DR, et al. Bridging high-throughput genetic and transcriptional data reveals cellular responses to alpha-synuclein toxicity. Nat Genet 2009, 41:316-323. 10.1038/ng.337, 2733244, 19234470.
16. Goh KI, Cusick ME, Valle D, Childs B, Vidal M, Barabasi AL. The human disease network. Proceedings of the National Academy of Sciences of the United States of America 2007, 104:8685-8690. 10.1073/pnas.0701361104, 1885563, 17502601.
17. Adeyemo A, Gerry N, Chen G, Herbert A, Doumatey A, Huang H, Zhou J, Lashley K, Chen Y, Christman M, Rotimi C. A genome-wide association study of hypertension and blood pressure in African Americans. PLoS Genet 2009, 5:e1000564. 10.1371/journal.pgen.1000564, 2702100, 19609347.
18. Levy D, Ehret GB, Rice K, Verwoert GC, Launer LJ, Dehghan A, Glazer NL, Morrison AC, Johnson AD, Aspelund T, et al. Genome-wide association study of blood pressure and hypertension. Nat Genet 2009, 41:677-687.
19. Newton-Cheh C, Johnson T, Gateva V, Tobin MD, Bochud M, Coin L, Najjar SS, Zhao JH, Heath SC, Eyheramendy S, et al. Genome-wide association study identifies eight loci associated with blood pressure. Nat Genet 2009, 41:666-676.
20. Prokopenko I, McCarthy MI, Lindgren CM. Type 2 diabetes: new genes, new understanding. Trends Genet 2008, 24:613-621. 10.1016/j.tig.2008.09.004, 18952314.
21. Saxena R, Voight BF, Lyssenko V, Burtt NP, de Bakker PI, Chen H, Roix JJ, Kathiresan S, Hirschhorn JN, Daly MJ, et al. Genome-wide association analysis identifies loci for type 2 diabetes and triglyceride levels. Science 2007, 316:1331-1336. 10.1126/science.1142358, 17463246.
22. Scott LJ, Mohlke KL, Bonnycastle LL, Willer CJ, Li Y, Duren WL, Erdos MR, Stringham HM, Chines PS, Jackson AU, et al. A genome-wide association study of type 2 diabetes in Finns detects multiple susceptibility variants. Science 2007, 316:1341-1345. 10.1126/science.1142382, 17463248.
23. Sladek R, Rocheleau G, Rung J, Dina C, Shen L, Serre D, Boutin P, Vincent D, Belisle A, Hadjadj S, et al. A genome-wide association study identifies novel risk loci for type 2 diabetes. Nature 2007, 445:881-885. 10.1038/nature05616, 17293876.
24. Zeggini E, Weedon MN, Lindgren CM, Frayling TM, Elliott KS, Lango H, Timpson NJ, Perry JR, Rayner NW, Freathy RM, et al. Replication of genome-wide association signals in UK samples reveals risk loci for type 2 diabetes. Science 2007, 316:1336-1341. 10.1126/science.1142364, 17463249.
25. Farris W, Mansourian S, Chang Y, Lindsley L, Eckman EA, Frosch MP, Eckman CB, Tanzi RE, Selkoe DJ, Guenette S. Insulin-degrading enzyme regulates the levels of insulin, amyloid beta-protein, and the beta-amyloid precursor protein intracellular domain in vivo. Proc Natl Acad Sci USA 2003, 100:4162-4167. 10.1073/pnas.0230450100, 153065, 12634421.
26. Chen G, Koyama K, Yuan X, Lee Y, Zhou YT, O'Doherty R, Newgard CB, Unger RH. Disappearance of body fat in normal rats induced by adenovirus-mediated leptin gene therapy. Proc Natl Acad Sci USA 1996, 93:14795-14799. 10.1073/pnas.93.25.14795, 26215, 8962134.
27. Tschop M, Smiley DL, Heiman ML. Ghrelin induces adiposity in rodents. Nature 2000, 407:908-913. 10.1038/35038090, 11057670.
28. Ferre P. The biology of peroxisome proliferator-activated receptors: relationship with lipid metabolism and insulin sensitivity. Diabetes 2004, 53(Suppl 1):S43-50. 10.2337/diabetes.53.2007.S43, 14749265.
29. Flanagan SE, Clauin S, Bellanne-Chantelot C, de Lonlay P, Harries LW, Gloyn AL, Ellard S. Update of mutations in the genes encoding the pancreatic beta-cell K(ATP) channel subunits Kir6.2 (KCNJ11) and sulfonylurea receptor 1 (ABCC8) in diabetes mellitus and hyperinsulinism. Hum Mutat 2009, 30:170-180. 10.1002/humu.20838, 18767144.
30. Li Z, Zhang W, Wu M, Zhu S, Gao C, Sun L, Zhang R, Qiao N, Xue H, Hu Y, et al. Gene expression-based classification and regulatory networks of pediatric acute lymphoblastic leukemia. Blood 2009, 114:4486-4493. 10.1182/blood-2009-04-218123, 19755675.
31. Masaki T, Chiba S, Yasuda T, Noguchi H, Kakuma T, Watanabe T, Sakata T, Yoshimatsu H. Involvement of hypothalamic histamine H1 receptor in the regulation of feeding rhythm and obesity. Diabetes 2004, 53:2250-2260. 10.2337/diabetes.53.9.2250, 15331534.
32. Hong JH, Hwang ES, McManus MT, Amsterdam A, Tian Y, Kalmukova R, Mueller E, Benjamin T, Spiegelman BM, Sharp PA, et al. TAZ, a transcriptional modulator of mesenchymal stem cell differentiation. Science 2005, 309:1074-1078. 10.1126/science.1110955, 16099986.
33. Goldsworthy M, Hugill A, Freeman H, Horner E, Shimomura K, Bogani D, Pieles G, Mijat V, Arkell R, Bhattacharya S, et al. Role of the transcription factor sox4 in insulin secretion and impaired glucose tolerance. Diabetes 2008, 57:2234-2244. 10.2337/db07-0337, 2494690, 18477811.
34. Becker KG, Barnes KC, Bright TJ, Wang SA. The genetic association database. Nat Genet 2004, 36:431-432. 10.1038/ng0504-431, 15118671.
35. Gunton JE, Kulkarni RN, Yim S, Okada T, Hawthorne WJ, Tseng YH, Roberson RS, Ricordi C, O'Connell PJ, Gonzalez FJ, Kahn CR. Loss of ARNT/HIF1beta mediates altered gene expression and pancreatic-islet dysfunction in human type 2 diabetes. Cell 2005, 122:337-349. 10.1016/j.cell.2005.05.027, 16096055.
36. Leiter EH, Prochazka M, Coleman DL. The non-obese diabetic (NOD) mouse. Am J Pathol 1987, 128:380-383. 1899627, 3303953.
37. Tisch R, McDevitt H. Insulin-dependent diabetes mellitus. Cell 1996, 85:291-297. 10.1016/S0092-8674(00)81106-X, 8616883.
38. King OD, Foulger RE, Dwight SS, White JV, Roth FP. Predicting gene function from patterns of annotation. Genome Res 2003, 13:896-904. 10.1101/gr.440803, 430892, 12695322.
39. Breitling R, Armengaud P, Amtmann A, Herzyk P. Rank products: a simple, yet powerful, new method to detect differentially regulated genes in replicated microarray experiments. FEBS letters 2004, 573:83-92. 10.1016/j.febslet.2004.07.055, 15327980.