Reconstruction of protein-protein interaction network of insulin signaling in Homo sapiens

Journal of Biomedicine and Biotechnology

Volumn 2010, Issue , 2010, Pages

  Tekir, Saliha Durmuş ^a   Ümit, Pelin ^a   Toku, Aysun Eren ^a   Ülgen, Kutlu Ö ^a  

^a BOGAZICI UNIVERSITY   (Turkey)

Author keywords

[No Author keywords available]

Indexed keywords

GLUCOSE; GLUCOSE TRANSPORTER 4; INSULIN; INSULIN RECEPTOR SUBSTRATE 1; INSULIN RECEPTOR SUBSTRATE 2; MITOGEN ACTIVATED PROTEIN KINASE 1; PHOSPHATIDYLINOSITOL 3 KINASE; PHOSPHATIDYLINOSITOL 3 KINASE GAMMA; PROTEIN P53; SMAD2 PROTEIN; SOMATOMEDIN; SOMATOMEDIN B RECEPTOR; SOMATOMEDIN BINDING PROTEIN 5; SOMATOMEDIN C RECEPTOR; SUPPRESSOR OF CYTOKINE SIGNALING 1; TUBERIN; PROTEOME;

ARTICLE; GLUCOSE METABOLISM; GLUCOSE TRANSPORT; HORMONE DETERMINATION; HUMAN; INSULIN METABOLISM; MOLECULAR DYNAMICS; NON INSULIN DEPENDENT DIABETES MELLITUS; PROBABILITY; PROTEIN ANALYSIS; PROTEIN FUNCTION; PROTEIN PROTEIN INTERACTION; SIGNAL TRANSDUCTION; THEORETICAL MODEL; ALGORITHM; BIOLOGY; METABOLISM; METHODOLOGY;

HOMO SAPIENS;

ALGORITHMS; COMPUTATIONAL BIOLOGY; DIABETES MELLITUS, TYPE 2; HUMANS; INSULIN; PROTEIN INTERACTION MAPPING; PROTEOME; SIGNAL TRANSDUCTION;

EID: 79251574335     PISSN: 11107243     EISSN: 11107251     Source Type: Journal    
DOI: 10.1155/2010/690925     Document Type: Article

References (50)

1. Ruffner H., Bauer A., Bouwmeester T., Human protein-protein interaction networks and the value for drug discovery Drug Discovery Today 2007 12 17-18 709 716
2. Oda K., Kitano H., A comprehensive map of the toll-like receptor signaling network Molecular Systems Biology 2006 2
3. Oda K., Matsuoka Y., Funahashi A., Kitano H., A comprehensive pathway map of epidermal growth factor receptor signaling Molecular Systems Biology 2005 1
4. Papin J. A., Palsson B. O., The JAK-STAT signaling network in the human B-cell: an extreme signaling pathway analysis Biophysical Journal 2004 87 1 37 46
5. Moller D. E., New drug targets for type 2 diabetes and the metabolic syndrome Nature 2001 414 6865 821 827
6. Cheatham B., Kahn C. R., Insulin action and the insulin signaling network Endocrine Reviews 1995 16 2 117 142
7. Taniguchi C. M., Emanuelli B., Kahn C. R., Critical nodes in signalling pathways: insights into insulin action Nature Reviews 2006 7 2 85 96
8. Avruch J., Insulin signal transduction through protein kinase cascades Molecular and Cellular Biochemistry 1998 182 1-2 31 48
9. Avogaro A., de Kreutzenberg S. V., Fadini G. P., Oxidative stress and vascular disease in diabetes: is the dichotomization of insulin signaling still valid? Free Radical Biology and Medicine 2008 44 6 1209 1215
10. Chew Y. H., Shia Y. L., Lee C. T., Majid F. A. A., Chua L. S., Sarmidi M. R., Aziz R. A., Modeling of glucose regulation and insulin signaling pathways Molecular and Cellular Endocrinology 2009 303 1-2 13 24
11. Schmelzle K., Kane S., Gridley S., Lienhard G. E., White F. M., Temporal dynamics of tyrosine phosphorylation in insulin signaling Diabetes 2006 55 8 2171 2179
12. Sedaghat A. R., Sherman A., Quon M. J., A mathematical model of metabolic insulin signaling pathways American Journal of Physiology 2002 283 5 E1084 E1101
13. Cheatham B., Vlahos C. J., Cheatham L., Wang L., Blenis J., Kahn C. R., Phosphatidylinositol 3-kinase activation is required for insulin stimulation of pp70 S6 kinase, DNA synthesis, and glucose transporter translocation Molecular and Cellular Biology 1994 14 7 4902 4911
14. Stark C., Breitkreutz B. J., Reguly T., Boucher L., Breitkreutz A., Tyers M., BioGRID: a general repository for interaction datasets Nucleic Acids Research 2006 34 D535 539
15. Steffen M., Petti A., Aach J., D'haeseleer P., Church G., Automated modelling of signal transduction networks BMC Bioinformatics 2002 3, article 34
16. Durmu Tekir S., Yalin Arga K., lgen K. O., Drug targets for tumorigenesis: insights from structural analysis of EGFR signaling network Journal of Biomedical Informatics 2009 42 2 228 236
17. Prulj N., Wigle D. A., Jurisica I., Functional topology in a network of protein interactions Bioinformatics 2004 20 3 340 348
18. Barabsi A.-L., Oltvai Z. N., Network biology: understanding the cell's functional organization Nature Reviews Genetics 2004 5 2 101 113
19. Albert R., Scale-free networks in cell biology Journal of Cell Science 2005 118 21 4947 4957
20. Deane C. M., Salwiski L., Xenarios I., Eisenberg D., Protein interactions: two methods for assessment of the reliability of high throughput observations Molecular Cellular Proteomics 2002 1 5 349 356
21. Sprinzak E., Sattath S., Margalit H., How reliable are experimental protein-protein interaction data? Journal of Molecular Biology 2003 327 5 919 923
22. Von Mering C., Krause R., Snel B., Cornell M., Oliver S. G., Fields S., Bork P., Comparative assessment of large-scale data sets of protein-protein interactions Nature 2002 417 6887 399 403
23. Arga K. Y., nsan Z. I., Kirdar B., lgen K.., Nielsen J., Understanding signaling in yeast: insights from network analysis Biotechnology and Bioengineering 2007 97 5 1246 1258
24. Lu L. J., Xia Y., Paccanaro A., Yu H., Gerstein M., Assessing the limits of genomic data integration for predicting protein networks Genome Research 2005 15 7 945 953
25. Patil A., Nakamura H., Filtering high-throughput protein-protein interaction data using a combination of genomic features BMC Bioinformatics 2005 6 100
26. Bader J. S., Chaudhuri A., Rothberg J. M., Chant J., Gaining confidence in high-throughput protein interaction networks Nature Biotechnology 2004 22 1 78 85
27. Jansen R., Yu H., Greenbaum D., Kluger Y., Krogan N. J., Chung S., Emili A., Snyder M., Greenblatt J. F., Gerstein M., A bayesian networks approach for predicting protein-protein interactions from genomic data Science 2003 302 5644 449 453
28. Haugen A. C., Kelley R., Collins J. B., Tucker C. J., Deng C., Afshari C. A., Brown J. M., Ideker T., Van Houten B., Integrating phenotypic and expression profiles to map arsenic-response networks Genome Biology 2004 5 12 R95
29. Liu Y., Zhao H., A computational approach for ordering signal transduction pathway components from genomics and proteomics data BMC Bioinformatics 2004 5 158 163
30. Begley T. J., Rosenbach A. S., Ideker T., Samson L. D., Damage recovery pathways in Saccharomyces cerevisiae revealed by genomic phenotyping and interactome mapping Molecular Cancer Research 2002 1 2 103 112
31. Lomberk G., Urrutia R., Primers on molecular pathwaysthe insulin pathway Pancreatology 2009 9 3 203 205
32. Karlsson H. K. R., Zierath J. R., Insulin signaling and glucose transport in insulin resistant human skeletal muscle Cell Biochemistry and Biophysics 2007 48 2-3 103 113
33. Lizcano J. M., Alessi D. R., The insulin signalling pathway Current Biology 2002 12 7 R236 R238
34. Holgado-Madruga M., Emlet D. R., Moscatello D. K., Godwin A. K., Wong A. J., A Grb2-associated docking protein in EGF- and insulin-receptor signalling Nature 1996 379 6565 560 564
35. Myers M. G. Jr., White M. F., The new elements of insulin signaling: insulin receptor substrate-1 and proteins with SH2 domains Diabetes 1993 42 5 643 650
36. Langeveld M., Aerts J. M. F. G., Glycosphingolipids and insulin resistance Progress in Lipid Research 2009 48 3-4 196 205
37. Papin J. A., Hunter T., Palsson B. O., Subramaniam S., Reconstruction of cellular signalling networks and analysis of their properties Nature Reviews Molecular Cell Biology 2005 6 2 99 111
38. 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 Computational Biology 2007 3 4 713 720
39. Wu X. R., Zhu Y., Li Y., Analyzing protein interaction networks via random graph model International Journal of Information Technology 2005 11 2 125 132
40. Yook S. H., Oltvai Z. N., Barabasi A. L., Functional and topological characterization of protein interaction networks Proteomics 2004 4 928 942
41. Lalioti V. S., Vergarajauregui S., Pulido D., Sandoval I. V., The insulin-sensitive glucose transporter, GLUT4, interacts physically with Daxx. Two proteins with capacity to bind Ubc9 and conjugated to SUMO1 Journal of Biological Chemistry 2002 277 22 19783 19791
42. Lalioti V. S., Vergarajauregui S., Tsuchiya Y., Hernandez-Tiedra S., Sandoval I. V., Daxx functions as a scaffold of a protein assembly constituted by GLUT4, JNK1 and KIF5B Journal of Cellular Physiology 2009 218 2 416 426
43. Maslov S., Sneppen K., Specificity and stability in topology of protein networks Science 2002 296 5569 910 913
44. Jeong H., Mason S. P., Barabsi A.-L., Oltvai Z. N., Lethality and centrality in protein networks Nature 2001 411 6833 41 42
45. Wagner A., Fell D. A., The small world inside large metabolic networks Proceedings of the Royal Society B 2001 268 1478 1803 1810
46. Jeong H., Tombor B., Albert R., Oltval Z. N., Barabsl A.-L., The large-scale organization of metabolic networks Nature 2000 407 6804 651 654
47. Watts D. J., Strogatz S. H., Collective dynamics of small-world networks Nature 1998 393 6684 440 442
48. McGee S. L., Van Denderen B. J. W., Howlett K. F., Mollica J., Schertzer J. D., Kemp B. E., Hargreaves M., AMP-activated protein kinase regulates GLUT4 transcription by phosphorylating histone deacetylase 5 Diabetes 2008 57 4 860 867
49. Schwartzenberg-Bar-Yoseph F., Armoni M., Karnieli E., The tumor suppressor p53 down-regulates glucose transporters GLUT1 and GLUT4 gene expression Cancer Research 2004 64 7 2627 2633
50. Heinlein C. A., Chang C., The roles of androgen receptors and androgen-binding proteins in nongenomic androgen actions Molecular Endocrinology 2002 16 10 2181 2187