Integrative analysis for finding genes and networks involved in diabetes and other complex diseases

被引:38
作者
Bergholdt, Regine [1 ]
Storling, Zenia M. [2 ]
Lage, Kasper [2 ]
Karlberg, E. Olof [2 ]
Olason, Pall I. [2 ]
Aalund, Mogens [3 ]
Nerup, Jorn [1 ,4 ]
Brunak, Soren [2 ]
Workman, Christopher T. [2 ]
Pociot, Flemming [1 ,4 ]
机构
[1] Steno Diabet Ctr, DK-2820 Gentofte, Denmark
[2] Tech Univ Denmark, Ctr Biol Sequence Anal, DK-2800 Lyngby, Denmark
[3] Neurotech AS, DK-2100 Copenhagen, Denmark
[4] Lund Univ, Inst Clin Sci, SE-22100 Lund, Sweden
关键词
D O I
10.1186/gb-2007-8-11-r253
中图分类号
Q81 [生物工程学(生物技术)]; Q93 [微生物学];
学科分类号
071005 ; 0836 ; 090102 ; 100705 ;
摘要
We have developed an integrative analysis method combining genetic interactions, identified using type l diabetes genome scan data, and a high-confidence human protein interaction network. Resulting networks were ranked by the significance of the enrichment of proteins from interacting regions. We identified a number of new protein network modules and novel candidate genes/ proteins for type 1 diabetes. We propose this type of integrative analysis as a general method for the elucidation of genes and networks involved in diabetes and other complex diseases.
引用
收藏
页数:12
相关论文
共 50 条
[1]   The Biomolecular Interaction Network Database and related tools 2005 update [J].
Alfarano, C ;
Andrade, CE ;
Anthony, K ;
Bahroos, N ;
Bajec, M ;
Bantoft, K ;
Betel, D ;
Bobechko, B ;
Boutilier, K ;
Burgess, E ;
Buzadzija, K ;
Cavero, R ;
D'Abreo, C ;
Donaldson, I ;
Dorairajoo, D ;
Dumontier, MJ ;
Dumontier, MR ;
Earles, V ;
Farrall, R ;
Feldman, H ;
Garderman, E ;
Gong, Y ;
Gonzaga, R ;
Grytsan, V ;
Gryz, E ;
Gu, V ;
Haldorsen, E ;
Halupa, A ;
Haw, R ;
Hrvojic, A ;
Hurrell, L ;
Isserlin, R ;
Jack, F ;
Juma, F ;
Khan, A ;
Kon, T ;
Konopinsky, S ;
Le, V ;
Lee, E ;
Ling, S ;
Magidin, M ;
Moniakis, J ;
Montojo, J ;
Moore, S ;
Muskat, B ;
Ng, I ;
Paraiso, JP ;
Parker, B ;
Pintilie, G ;
Pirone, R .
NUCLEIC ACIDS RESEARCH, 2005, 33 :D418-D424
[2]  
Bader GD, 2003, NUCLEIC ACIDS RES, V31, P248, DOI 10.1093/nar/gkg056
[3]   Complete sequence and gene map of a human major histocompatibility complex [J].
Beck, S ;
Geraghty, D ;
Inoko, H ;
Rowen, L ;
Aguado, B ;
Bahram, S ;
Campbell, RD ;
Forbes, SA ;
Guillaudeux, T ;
Hood, L ;
Horton, R ;
Janer, M ;
Jasoni, C ;
Madan, A ;
Milne, S ;
Neville, M ;
Oka, A ;
Qin, S ;
Ribas-Despuig, G ;
Rogers, J ;
Shiina, T ;
Spies, T ;
Tamiya, G ;
Tashiro, H ;
Trowsdale, J ;
Vu, Q ;
Williams, L ;
Yamazaki, M .
NATURE, 1999, 401 (6756) :921-923
[4]   Fine mapping of a region on chromosome 21q21.11-q22.3 showing linkage to type 1 diabetes [J].
Bergholdt, R ;
Nerup, J ;
Pociot, F .
JOURNAL OF MEDICAL GENETICS, 2005, 42 (01) :17-25
[5]   Predicting function: From genes to genomes and back [J].
Bork, P ;
Dandekar, T ;
Diaz-Lazcoz, Y ;
Eisenhaber, F ;
Huynen, M ;
Yuan, YP .
JOURNAL OF MOLECULAR BIOLOGY, 1998, 283 (04) :707-725
[6]   Linkage analyses in type I diabetes mellitus using CASPAR, a software and statistical program for conditional analysis of polygenic diseases [J].
Buhler, J ;
Owerbach, D ;
Schaffer, AA ;
Kimmel, M ;
Gabbay, KH .
HUMAN HEREDITY, 1997, 47 (04) :211-222
[7]   Epistasis:: too often neglected in complex trait studies? [J].
Carlborg, Ö ;
Haley, CS .
NATURE REVIEWS GENETICS, 2004, 5 (08) :618-U4
[8]   A global search reveals epistatic interaction between QTL for early growth in the chicken [J].
Carlborg, Ö ;
Kerje, S ;
Schütz, K ;
Jacobsson, L ;
Jensen, P ;
Andersson, L .
GENOME RESEARCH, 2003, 13 (03) :413-421
[9]   Type 1 diabetes - Evidence for susceptibility loci from four genome-wide linkage scans in 1,435 multiplex families [J].
Concannon, P ;
Erlich, HA ;
Julier, C ;
Morahan, G ;
Nerup, J ;
Pociot, F ;
Todd, JA ;
Rich, SS .
DIABETES, 2005, 54 (10) :2995-3001
[10]  
CORDELL HJ, 1995, AM J HUM GENET, V57, P920