Molecular signatures for obesity and associated disorders identified through partial least square regression models

BMC Systems Biology

Volumn 8, Issue 1, 2014, Pages

  Sinha, Neeraj ^a   Sharma, Sachin ^a   Tripathi, Parul ^a   Negi, Simarjeet K ^a   Tikoo, Kamiya ^a   Kumar, Dhiraj ^a   Rao, Kanury V S ^a   Chatterjee, Samrat ^a,b  

^a INTERNATIONAL CENTRE FOR GENETIC ENGINEERING AND BIOTECHNOLOGY   (Italy)

^b Translational Health Science and Technology Institute   (India)

Author keywords

Biological classifications; Gene signature; Hub proteins; Obesity; Partial least square model; Type II diabetes

Indexed keywords

BIOLOGICAL MARKER; CYTOKINE; GLUCOSE BLOOD LEVEL; SUCROSE; TRANSCRIPTOME;

ANIMAL; AYURVEDA; BLOOD; BODY WEIGHT; C57BL MOUSE; GENETICS; GLUCOSE BLOOD LEVEL; LIPID DIET; METABOLISM; MICROARRAY ANALYSIS; MOUSE; NON INSULIN DEPENDENT DIABETES MELLITUS; OBESITY; PHYSIOLOGY; REGRESSION ANALYSIS;

ANIMALS; BIOMARKERS; BLOOD GLUCOSE; BODY WEIGHT; CYTOKINES; DIABETES MELLITUS, TYPE 2; DIET, HIGH-FAT; LEAST-SQUARES ANALYSIS; MEDICINE, AYURVEDIC; MICE; MICE, INBRED C57BL; MICROARRAY ANALYSIS; OBESITY; SUCROSE; TRANSCRIPTOME;

EID: 84910091250     PISSN: None     EISSN: 17520509     Source Type: Journal    
DOI: 10.1186/s12918-014-0104-4     Document Type: Article

References (28)

1. Alwan A: The World Health Report..., http://www.who.int/nmh/publications/ncd_report2010/en/
2. Hill JO, Peters JC, Catenacci VA, Wyatt HR. International strategies to address obesity. Obes Rev 2008, 9(Suppl 1):41-47. 10.1111/j.1467-789X.2007.00437.x, 18307698.
3. Haslam DW, James WPT. Obesity. Lancet 2005, 366(9492):1197-1209. 10.1016/S0140-6736(05)67483-1, 16198769.
4. Kopelman PG. Obesity as a medical problem. Nature 2000, 404(6778):635-643. 10766250.
5. Shao W, Yu Z, Chiang Y, Yang Y, Chai T, Foltz W, Lu H, Fantus IG, Jin T. Curcumin prevents high fat diet induced insulin resistance and obesity via attenuating lipogenesis in liver and inflammatory pathway in adipocytes. PLoS One 2012, 7(1):e28784. 10.1371/journal.pone.0028784, 22253696.
6. Tikoo K, Misra S, Rao KV, Tripathi P, Sharma S. Immunomodulatory Role of an Ayurvedic Formulation on Imbalanced Immunometabolics during Inflammatory Responses of Obesity and Prediabetic Disease. Evid base Compl Alternative Med 2013, 2013:795072.
7. Perez-Enciso M, Tenenhaus M. Prediction of clinical outcome with microarray data: a partial least squares discriminant analysis (PLS-DA) approach. Hum Genet 2003, 112(5-6):581-592. 12607117.
8. Lin S, Thomas TC, Storlien LH, Huang XF. Development of high fat diet-induced obesity and leptin resistance in C57Bl/6 J mice. Int J Obes Relat Metab Disord 2000, 24(5):639-646. 10.1038/sj.ijo.0801209, 10849588.
9. Petro AE, Cotter J, Cooper DA, Peters JC, Surwit SJ, Surwit RS. Fat, carbohydrate, and calories in the development of diabetes and obesity in the C57BL/6 J mouse. Metabolism 2004, 53(4):454-457. 10.1016/j.metabol.2003.11.018, 15045691.
10. Surwit RS, Feinglos MN, Rodin J, Sutherland A, Petro AE, Opara EC, Kuhn CM, Rebuffe-Scrive M. Differential effects of fat and sucrose on the development of obesity and diabetes in C57BL/6 J and A/J mice. Metabolism 1995, 44(5):645-651. 10.1016/0026-0495(95)90123-X, 7752914.
11. Staehr P, Hother-Nielsen O, Beck-Nielsen H. The role of the liver in type 2 diabetes. Rev Endocr Metab Disord 2004, 5(2):105-110. 10.1023/B:REMD.0000021431.90494.0c, 15041785.
12. Juge-Aubry CE, Henrichot E, Meier CA. Adipose tissue: a regulator of inflammation. Best Pract Res Clin Endocrinol Metab 2005, 19(4):547-566. 10.1016/j.beem.2005.07.009, 16311216.
13. Lin Y, Sun Z. Current views on type 2 diabetes. J Endocrinol 2010, 204(1):1-11. 10.1677/JOE-09-0260, 19770178.
14. Barabasi AL, Albert R. Emergence of scaling in random networks. Science 1999, 286(5439):509-512. 10.1126/science.286.5439.509, 10521342.
15. Korhonen O, Matero S, Poso A, Ketolainen J. Partial least square projections to latent structures analysis (PLS) in evaluating and predicting drug release from starch acetate matrix tablets. J Pharm Sci 2005, 94(12):2716-2730. 10.1002/jps.20485, 16258997.
16. Mi H, Thomas P. PANTHER pathway: an ontology-based pathway database coupled with data analysis tools. Methods Mol Biol 2009, 563:123-140. 10.1007/978-1-60761-175-2_7, 19597783.
17. Przulj N, Corneil DG, Jurisica I. Modeling interactome: scale-free or geometric?. Bioinformatics 2004, 20(18):3508-3515. 10.1093/bioinformatics/bth436, 15284103.
18. Barabasi A-L, Oltvai ZN. Network biology: understanding the cell's functional organization. Nat Rev Genet 2004, 5(2):101-113. 10.1038/nrg1272, 14735121.
19. Yook SH, Oltvai ZN, Barabasi AL. Functional and topological characterization of protein interaction networks. Proteomics 2004, 4(4):928-942. 10.1002/pmic.200300636, 15048975.
20. Dong J, Horvath S. Understanding network concepts in modules. BMC Syst Biol 2007, 1:24. 10.1186/1752-0509-1-24, 17547772.
21. Liang H, Li WH. MicroRNA regulation of human protein protein interaction network. RNA 2007, 13(9):1402-1408. 10.1261/rna.634607, 17652130.
22. Chung J, Nguyen AK, Henstridge DC, Holmes AG, Chan MH, Mesa JL, Lancaster GI, Southgate RJ, Bruce CR, Duffy SJ, Horvath I, Mestril R, Watt MJ, Hooper PL, Kingwell BA, Vigh L, Hevener A, Febbraio MA. HSP72 protects against obesity-induced insulin resistance. Proc Natl Acad Sci U S A 2008, 105(5):1739-1744. 10.1073/pnas.0705799105, 18223156.
23. Lee JH, Ragolia L. AKT phosphorylation is essential for insulin-induced relaxation of rat vascular smooth muscle cells. Am J Physiol Cell Physiol 2006, 291(6):C1355-C1365. 10.1152/ajpcell.00125.2006, 16855220.
24. Shelton RC, Claiborne J, Sidoryk-Wegrzynowicz M, Reddy R, Aschner M, Lewis DA, Mirnics K. Altered expression of genes involved in inflammation and apoptosis in frontal cortex in major depression. Mol Psychiatry 2011, 16(7):751-762. 10.1038/mp.2010.52, 20479761.
25. Hotamisligil GS. Inflammation and metabolic disorders. Nature 2006, 444(7121):860-867. 10.1038/nature05485, 17167474.
26. van Noort V, Snel B, Huynen MA. The yeast coexpression network has a small-world, scale-free architecture and can be explained by a simple model. EMBO Rep 2004, 5(3):280-284. 10.1038/sj.embor.7400090, 14968131.
27. Kaput J, Klein KG, Reyes EJ, Kibbe WA, Cooney CA, Jovanovic B, Visek WJ, Wolff GL. Identification of genes contributing to the obese yellow Avy phenotype: caloric restriction, genotype, diet x genotype interactions. Physiol Genomics 2004, 18(3):316-324. 10.1152/physiolgenomics.00065.2003, 15306695.
28. Jesmin J, Rashid MS, Jamil H, Hontecillas R, Bassaganya-Riera J. Gene regulatory network reveals oxidative stress as the underlying molecular mechanism of type 2 diabetes and hypertension. BMC Med Genomics 2010, 3(1):45. 10.1186/1755-8794-3-45, 20942928.