A protein interaction based model for schizophrenia study

BMC Bioinformatics

Volumn 9, Issue SUPPL. 12, 2008, Pages

  Hsu, Pei Chun ^a   Yang, Ueng Cheng ^a   Shih, Kuan Hui ^a   Liu, Chih Min ^b   Liu, Yu Li ^c   Hwu, Hai Gwo ^b  

^a NATIONAL YANG MING UNIVERSITY   (Taiwan)

^b NATIONAL TAIWAN UNIVERSITY HOSPITAL   (Taiwan)

^c NATIONAL HEALTH RESEARCH INSTITUTES   (Taiwan)

Author keywords

[No Author keywords available]

Indexed keywords

CHROMOSOMAL LOCATION; ENVIRONMENTAL FACTORS; GENE ONTOLOGY ANNOTATIONS; MICROARRAY GENE EXPRESSION; PROTEIN INTERACTION NETWORKS; PROTEIN-INTERACTION MODULES; PROTEIN-PROTEIN INTERACTIONS; SYNAPTIC TRANSMISSION; AMPA-RECEPTOR; ANALYSIS APPROACH; CALCIUM CHANNELS; CANDIDATE GENES; CO-EXPRESSION; COLLECTIVE EFFECTS; COMPLEX DISEASE; GENE COMBINATIONS; GENE ONTOLOGY; GENETIC FACTORS; METABOLIC PATHWAYS; MULTIPLE FACTORS; NEAREST NEIGHBOUR; PAIRWISE DISTANCES; PROTEIN INTERACTION; SMALL CLUSTERS; SUB-NETWORK;

ASSOCIATION REACTIONS; CALCIUM; COMPLEX NETWORKS; DISEASES; GENE EXPRESSION; SIGNAL TRANSDUCTION; BIOINFORMATICS;

PROTEINS;

AMPA RECEPTOR; CALCIUM; CALCIUM CHANNEL; GENE PRODUCT; N METHYL DEXTRO ASPARTIC ACID RECEPTOR; NEU DIFFERENTIATION FACTOR; PROTEIN CACNG2; STARGAZIN; UNCLASSIFIED DRUG; CACNG2 PROTEIN, HUMAN; NERVE PROTEIN; NRG1 PROTEIN, HUMAN;

CALCIUM TRANSPORT; CLUSTER ANALYSIS; CONFERENCE PAPER; GENE EXPRESSION REGULATION; GENETIC ASSOCIATION; GENETIC LINKAGE; INTERNALIZATION; MICROARRAY ANALYSIS; PATHOGENESIS; PROTEIN ANALYSIS; PROTEIN EXPRESSION; PROTEIN FUNCTION; PROTEIN INTERACTION; PROTEIN PROTEIN INTERACTION; SCHIZOPHRENIA; SIGNAL TRANSDUCTION; SYNAPTIC TRANSMISSION; ARTICLE; AUTOMATED PATTERN RECOGNITION; BIOLOGY; DNA MICROARRAY; GENETIC PREDISPOSITION; GENETICS; HUMAN; METABOLISM; METHODOLOGY; PHENOTYPE; RISK FACTOR; SYNAPSE;

CALCIUM CHANNELS; CLUSTER ANALYSIS; COMPUTATIONAL BIOLOGY; GENETIC PREDISPOSITION TO DISEASE; HUMANS; NERVE TISSUE PROTEINS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PATTERN RECOGNITION, AUTOMATED; PHENOTYPE; PROTEIN INTERACTION MAPPING; RISK FACTORS; SCHIZOPHRENIA; SIGNAL TRANSDUCTION; SYNAPSES;

EID: 57649193093     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-9-S1-S23     Document Type: Conference Paper

References (38)

1. Austin J Schizophrenia: An update and review J Genet Couns 2005, 14(5):329-340 10.1007/s10897-005-1622-4 16195940
2. Craddock N O'Donovan MC Owen MJ The genetics of schizophrenia and bipolar disorder: Dissecting psychosis J Med Genet 2005, 42(3):193-204 1736023 15744031 10.1136/jmg.2005.030718
3. Karayiorgou M Gogos JA Schizophrenia genetics: Uncovering positional candidate genes Eur J Hum Genet 2006, 14(5):512-519 10.1038/ sj.ejhg.5201587 16493444
4. Lim J Hao T Shaw C Patel AJ Szabo G Rual JF Fisk CJ Li N Smolyar A Hill DE et al A protein-protein interaction network for human inherited ataxias and disorders of Purkinje cell degeneration Cell 2006, 125(4):801-814 10.1016/j.cell.2006.03.032 16713569
5. Goh KI Cusick ME Valle D Childs B Vidal M Barabasi AL The human disease network Proc Natl Acad Sci USA 2007, 104(21):8685-8690 1885563 17502601 10.1073/pnas.0701361104
6. Rives AW Galitski T Modular organization of cellular networks Proc Natl Acad Sci USA 2003, 100(3):1128-1133 298738 12538875 10.1073/ pnas.0237338100
7. Qi Y Ge H Modularity and dynamics of cellular networks PLoS Comput Biol 2006, 2(12):e174 1761653 17196032 10.1371/journal.pcbi.0020174
8. Hartwell LH Hopfield JJ Leibler S Murray AW From molecular to modular cell biology Nature 1999, 402(6761 Suppl):C47-52 10.1038/35011540 10591225
9. Falls DL Neuregulins: Functions, forms, and signaling strategies Exp Cell Res 2003, 284(1):14-30 10.1016/S0014-4827(02)00102-7 12648463
10. Stefansson H Sigurdsson E Steinthorsdottir V Bjornsdottir S Sigmundsson T Ghosh S Brynjolfsson J Gunnarsdottir S Ivarsson O Chou TT et al Neuregulin 1 and susceptibility to schizophrenia Am J Hum Genet 2002, 71(4):877-892 378543 12145742 10.1086/342734
11. Liu CM Hwu HG Fann CS Lin CY Liu YL Ou-Yang WC Lee SF Linkage evidence of schizophrenia to loci near neuregulin 1 gene on chromosome 8p21 in Taiwanese families Am J Med Genet B Neuropsychiatr Genet 2005, 134B(1):79-83 10.1002/ajmg.b.20161 15704228
12. Buonanno A Fischbach GD Neuregulin and ErbB receptor signaling pathways in the nervous system Curr Opin Neurobiol 2001, 11(3):287-296 10.1016/ S0959-4388(00)00210-5 11399426
13. Mei L Xiong WC Neuregulin 1 in neural development, synaptic plasticity and schizophrenia Nat Rev Neurosci 2008, 9(6):437-452 10.1038/nrn2392 18478032
14. Fischbach GD Schizophrenia: Signals from the other side Nat Med 2006, 12(7):734-735 10.1038/nm0706-734 16829916
15. Harrison PJ Weinberger DR Schizophrenia genes, gene expression, and neuropathology: On the matter of their convergence Mol Psychiatry 2005, 10(1):40-68 image 45. 10.1038/sj.mp.4001558 15263907
16. Hahn CG Wang HY Cho DS Talbot K Gur RE Berrettini WH Bakshi K Kamins J Borgmann-Winter KE Siegel SJ et al Altered neuregulin 1-erbB4 signaling contributes to NMDA receptor hypofunction in schizophrenia Nat Med 2006, 12(7):824-828 10.1038/nm1418 16767099
17. Kim JS Kornhuber HH Schmid-Burgk W Holzmuller B Low cerebrospinal fluid glutamate in schizophrenic patients and a new hypothesis on schizophrenia Neurosci Lett 1980, 20(3):379-382 10.1016/ 0304-3940(80)90178-0 6108541
18. Coyle JT Tsai G Goff D Converging evidence of NMDA receptor hypofunction in the pathophysiology of schizophrenia Ann N Y Acad Sci 2003, 1003:318-327 10.1196/annals.1300.020 14684455
19. Chen L Chetkovich DM Petralia RS Sweeney NT Kawasaki Y Wenthold RJ Bredt DS Nicoll RA Stargazin regulates synaptic targeting of AMPA receptors by two distinct mechanisms Nature 2000, 408(6815):936-943 10.1038/35050030 11140673
20. Bats C Groc L Choquet D The interaction between Stargazin and PSD-95 regulates AMPA receptor surface trafficking Neuron 2007, 53(5):719-734 10.1016/j.neuron.2007.01.030 17329211
21. Badner JA Gershon ES Meta-analysis of whole-genome linkage scans of bipolar disorder and schizophrenia Mol Psychiatry 2002, 7(4):405-411 10.1038/sj.mp.4001012 11986984
22. Liu YL Fann CS Liu CM Chen WJ Wu JY Hung SI Chen CH Jou YS Liu SK Hwang TJ et al RASD2, MYH9, and CACNG2 Genes at Chromosome 22q12 Associated with the Subgroup of Schizophrenia with Non-Deficit in Sustained Attention and Executive Function Biol Psychiatry 2008
23. Li T Ball D Zhao J Murray RM Liu X Sham PC Collier DA Family-based linkage disequilibrium mapping using SNP marker haplotypes: Application to a potential locus for schizophrenia at chromosome 22q11 Mol Psychiatry 2000, 5(4):452 10.1038/sj.mp.4000752 10889560
24. Chen CH Generalized association plots: Information visualization via iteratively generated correlation matrices Statistica Sinica 2002, 12:7-29
25. Ashburner M Ball CA Blake JA Botstein D Butler H Cherry JM Davis AP Dolinski K Dwight SS Eppig JT et al Gene ontology: Tool for the unification of biology. The Gene Ontology Consortium Nat Genet 2000, 25:1-25 29 10.1038/75556 10802651
26. Zeeberg BR Feng W Wang G Wang MD Fojo AT Sunshine M Narasimhan S Kane DW Reinhold WC Lababidi S et al GoMiner: A resource for biological interpretation of genomic and proteomic data Genome Biol 2003, 4(4):R28 154579 12702209 10.1186/gb-2003-4-4-r28
27. Pariseau C Gregor P Myles-Worsley M Holik J Hoff M Waldo M Freedman R Coon H Byerley W Schizophrenia and glutamate receptor genes Psychiatr Genet 1994, 4(3):161-165 10.1097/00041444-199400430-00006 7719702
28. Phillips HS Kharbanda S Chen R Forrest WF Soriano RH Wu TD Misra A Nigro JM Colman H Soroceanu L et al Molecular subclasses of high-grade glioma predict prognosis, delineate a pattern of disease progression, and resemble stages in neurogenesis Cancer Cell 2006, 9(3):157-173 10.1016/ j.ccr.2006.02.019 16530701
29. Butte A The use and analysis of microarray data Nat Rev Drug Discov 2002, 1(12):951-960 10.1038/nrd961 12461517
30. Yau HJ Ontogeny of the Neuregulin Receptor ErbB4 in the Rat Forebrain and Phenotypic Characterization of ErbB4-Deficienct Mice PhD thesis Taiwan: National Yang-Ming University 2006
31. Yau HJ Wang HF Lai C Liu FC Neural development of the neuregulin receptor ErbB4 in the cerebral cortex and the hippocampus: Preferential expression by interneurons tangentially migrating from the ganglionic eminences Cereb Cortex 2003, 13(3):252-264 10.1093/cercor/13.3.252 12571115
32. Carter CJ Schizophrenia susceptibility genes converge on interlinked pathways related to glutamatergic transmission and long-term potentiation, oxidative stress and oligodendrocyte viability Schizophr Res 2006, 86(1-3):1-14 10.1016/j.schres.2006.05.023 16842972
33. Lev S Moreno H Martinez R Canoll P Peles E Musacchio JM Plowman GD Rudy B Schlessinger J Protein tyrosine kinase PYK2 involved in Ca(2+)-induced regulation of ion channel and MAP kinase functions Nature 1995, 376(6543):737-745 10.1038/376737a0 7544443
34. Eastwood SL Burnet PW Harrison PJ GluR2 glutamate receptor subunit flip and flop isoforms are decreased in the hippocampal formation in schizophrenia: A reverse transcriptase-polymerase chain reaction (RT-PCR) study Brain Res Mol Brain Res 1997, 44(1):92-98 10.1016/ S0169-328X(96)00195-7 9030702
35. Shannon P Markiel A Ozier O Baliga NS Wang JT Ramage D Amin N Schwikowski B Ideker T Cytoscape: A software environment for integrated models of biomolecular interaction networks Genome Res 2003, 13(11):2498-2504 403769 14597658 10.1101/gr.1239303
36. Edgar R Domrachev M Lash AE Gene Expression Omnibus: NCBI gene expression and hybridization array data repository Nucleic Acids Res 2002, 30(1):207-210 99122 11752295 10.1093/nar/30.1.207
37. Irizarry RA Bolstad BM Collin F Cope LM Hobbs B Speed TP Summaries of Affymetrix GeneChip probe level data Nucleic Acids Res 2003, 31(4):e15 150247 12582260 10.1093/nar/gng015
38. Schnell E Sizemore M Karimzadegan S Chen L Bredt DS Nicoll RA Direct interactions between PSD-95 and stargazin control synaptic AMPA receptor number Proc Natl Acad Sci USA 2002, 99(21):13902-13907 129795 12359873 10.1073/pnas.172511199