T1DBase, a community web-based resource for type 1 diabetes research

Nucleic Acids Research

Volumn 33, Issue DATABASE ISS., 2005, Pages

  Smink, Luc J ^d   Helton, Erin M ^a   Healy, Barry C ^d   Cavnor, Christopher C ^a   Lam, Alex C ^d   Flamez, Daisy ^b   Burren, Oliver S ^d   Wang, Yang ^a   Dolman, Geoffrey E ^d   Burdick, David B ^a   Everett, Vincent H ^d   Glusman, Gustavo ^a   Laneri, Davide ^d   Rowen, Lee ^a   Schuilenburg, Helen ^d   Walker, Neil M ^d   Mychaleckyj, Josyf ^c   Wicker, Linda S ^d   Eizirik, Decio L ^b   Todd, John A ^d   Goodman, Nathan ^a   more..

^a INSTITUTE FOR SYSTEMS BIOLOGY   (United States)

^b UNIVERSITÉ LIBRE DE BRUXELLES   (Belgium)

^c WAKE FOREST SCHOOL OF MEDICINE   (United States)

^d UNIVERSITY OF CAMBRIDGE   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ACCESS TO INFORMATION; ARTICLE; BETA CELL GENE EXPRESSION BANK; COMPUTER PROGRAM; CONGENIC STRAIN; FACTUAL DATABASE; GENE EXPRESSION; GENE FUNCTION; GENE SEQUENCE; GENETIC ASSOCIATION; GENETIC DATABASE; GENETIC LINKAGE; GENETIC SUSCEPTIBILITY; HUMAN; INSULIN DEPENDENT DIABETES MELLITUS; INTERNET; MOLECULAR GENETICS; MOUSE STRAIN; NONHUMAN; PANCREAS ISLET BETA CELL; PATHOGENESIS; PRIORITY JOURNAL; T1DBASE; CLINICAL RESEARCH; DIABETOGENESIS; TYPE 1 DIABETES DATABASE; WEB BROWSER;

ANIMALS; BIOMEDICAL RESEARCH; DATABASE MANAGEMENT SYSTEMS; DATABASES, GENETIC; DIABETES MELLITUS, TYPE 1; DISEASE MODELS, ANIMAL; GENE EXPRESSION; GENETIC PREDISPOSITION TO DISEASE; GENOMICS; HUMANS; INTERNET; ISLETS OF LANGERHANS; MICE; RATS; USER-COMPUTER INTERFACE;

EID: 13444254250     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/gki095     Document Type: Article

References (27)

1. Burren,O.S., Healy,B.C., Lam,A.C., Schuilenburg,H., Dolman,G.E., Everett,V.H., Laneri,D., Nutland,S., Rance,H.E., Payne,F. et al. (2004) Development of an integrated genome informatics, data management and workflow infrastructure: a toolbox for the study of complex disease. Human Genomics, 1, 98-109.
2. Vyse,T.J. and Todd,J.A. (1996) Genetic analysis of autoimmune disease. Cell, 85, 311-318.
3. Barratt,B.J., Payne,F., Lowe,C.E., Hermann,R., Healy,B.C., Harold,D., Concannon,P., Gharani,N., McCarthy,M.I., Olavesen,M.G. et al. (2004) Remapping the insulin gene/IDDM2 locus in type 1 diabetes. Diabetes, 53, 1884-1889.
4. Ueda,H., Howson,J.M., Esposito,L., Heward,J., Snook,H., Chamberlain,G., Rainbow,D.B., Hunter,K.M., Smith,A.N., Di Genova,G. et al. (2003) Association of the T-cell regulatory gene CTLA4 with susceptibility to autoimmune disease. Nature, 423, 506-511.
5. Bottini,N., Musumeci,L., Alonso,A., Rahmouni,S., Nika,K., Rostamkhani,M., MacMurray,J., Meloni,G.F., Lucarelli,P., Pellecchia,M. et al. (2004) A functional variant of lymphoid tyrosine phosphatase is associated with type I diabetes. Nature Genet., 36, 337-338.
6. Birney,E., Andrews,D., Bevan,P., Caccamo,M., Cameron,G., Chen,Y., Clarke,L., Coates,G., Cox,T., Cuff,J. et al. (2004) Ensembl 2004. Nucleic Acids Res., 32, D468-D470.
7. Birney,E., Andrews,T.D., Bevan,P., Caccamo,M., Chen,Y., Clarke,L., Coates,G., Cuff,J., Curwen,V., Cutts,T. et al. (2004) An overview of Ensembl. Genome Res., 14, 925-928.
8. Karolchik,D., Baertsch,R., Diekhans,M., Furey,T.S., Hinrichs,A., Lu,Y.T., Roskin,K.M., Schwartz,M., Sugnet,C.W., Thomas,D.J. et al. (2003) The UCSC genome browser database. Nucleic Acids Res., 31, 51-54.
9. Bult,C.J., Blake,J.A., Richardson,J.E., Kadin,J.A., Eppig,J.T. and the Mouse Genome Database Group (2004) The Mouse Genome Database (MGD): integrating biology with the genome. Nucleic Acids Res., 32, D476-D481.
10. Twigger,S., Lu,J., Shimoyama,M., Chen,D., Pasko,D., Long,H., Ginster,J., Chen,C.F., Nigam,R., Kwitek,A. et al. (2002) Rat Genome Database (RGD): mapping disease onto the genome. Nucleic Acids Res. 30, 125-128.
11. Becker,K.G., Barnes,K.C., Bright,T.J. and Wang,S.A. (2004) The genetic association database. Nature Genet., 36, 431-432.
12. Cardozo,A.K., Heimberg,H., Heremans,Y., Leeman,R., Kutlu,B., Kruhoffer,M., Orntoft,T. and Eizirik,D.L. (2001) A comprehensive analysis of cytokine-induced and nuclear factor-kappa B-dependent genes in primary rat pancreatic beta-cells. J. Biol. Chem., 276, 48879-48886.
13. Cardozo,A.K., Kruhoffer,M., Leeman,R., Orntoft,T. and Eizirik,D.L. (2001) Identification of novel cytokine-induced genes in pancreatic beta-cells by high-density oligonucleotide arrays. Diabetes 50, 909-920.
14. Eizirik,D.L., Kutlu,B., Rasschaert,J., Darville,M. and Cardozo,A.K. (2003) Use of microarray analysis to unveil transcription factor and gene networks contributing to Beta cell dysfunction and apoptosis. Ann. NY Acad. Sci., 1005, 55-74.
15. Rasschaert,J., Liu,D., Kutlu,B., Cardozo,A.K., Kruhoffer,M., Orntoft,T.F. and Eizirik,D.L. (2003) Global profiling of double stranded RNA- and IFN-gamma-induced genes in rat pancreatic beta cells. Diabetologia, 46, 1641-1657.
16. Kutlu,B., Cardozo,A.K., Darville,M.I., Kruhoffer,M., Magnusson,N., Orntoft,T. and Eizirik,D.L. (2003) Discovery of gene networks regulating cytokine-induced dysfunction and apoptosis in insulin-producing INS-1 cells. Diabetes, 52, 2701-2719.
17. Su,A.I., Wiltshire,T., Batalov,S., Lapp,H., Ching,K.A., Block,D., Zhang,J., Soden,R., Hayakawa,M., Kreiman,G. et al. (2004) A gene atlas of the mouse and human protein-encoding transcriptomes. Proc. Natl Acad. Sci. USA, 101, 6062-6067.
18. Kanehisa,M., Goto,S., Kawashima,S., Okuno,Y. and Hattori,M. (2004) The KEGG resource for deciphering the genome. Nucleic Acids Res., 32, D277-D280.
19. Stein,L.D., Mungall,C., Shu,S., Caudy,M., Mangone,M., Day,A., Nickerson,E., Stajich,J.E., Harris,T.W., Arva,A. et al. (2002) The Generic Genome Browser: a building block for a model organism system database. Genome Res., 10, 1599-1610.
20. Johnson,G.C., Esposito,L., Barratt,B.J., Smith,A.N., Heward,J., Di Genova,G., Ueda,H., Cordell,H.J., Eaves,I.A., Dudbridge,F. et al. (2001) Haplotype tagging for the identification of common disease genes. Nature Genet., 29, 233-237.
21. Dowell,R.D., Jokerst,R.M., Day,A., Eddy,S.R. and Stein,L. (2001) The distributed annotation system. BMC Bioinformatics, 2 7.
22. Kolbe,D., Taylor,J., Elnitski,L., Eswara,P., Li,J., Miller,W., Hardison,R. and Chiaromonte,F. (2004) Regulatory potential scores from genome-wide three-way alignments of human, mouse, and rat. Genome Res., 14, 700-707.
23. Kent,W.J. (2002) BLAT - the BLAST-like alignment tool. Genome Res., 12, 656-664.
24. Gospodnetic,O. (2003) Introduction to Text Indexing with Apache Jakarta Lucene. onjava.com.
25. Shannon,P., Markiel,A., Ozier,O., Baliga,N.S., Wang,J.T., Ramage,D., Amin,N., Schwikowski,B. and Ideker,T. (2003) Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res., 13, 2498-2504.
26. Peri,S., Navarro,J.D., Kristiansen,T.Z., Amanchy,R., Surendranath,V., Muthusamy,B., Gandhi,T.K., Chandrika,K.N., Deshpande,N., Suresh,S. et al. (2004) Human protein reference database as a discovery resource for proteomics. Nucleic Acids Res., 32, D497-D501.
27. Glusman,G. and Lancet,D. (2000) GESTALT: a workbench for automatic integration and visualization of large-scale genomic sequence analyses. Bioinformatics, 16, 482-483.