A protein interaction network associated with asthma

被引：81

作者：

Hwang, Sohyun ^{[1
,3
]}

Son, Seung-Woo ^{[2
]}

Kim, Sang Cheol ^{[3
,4
]}

Kim, Young Joo ^{[3
]}

Jeong, Hawoong ^{[2
]}

Lee, Doheon ^{[1
]}

机构：

[1] Korea Adv Inst Sci & Technol, Dept Bio & Brain Engn, Taejon, South Korea

[2] Korea Adv Inst Sci & Technol, Inst BioCentury, Dept Phys, Taejon, South Korea

[3] KRIBB, Korean BioInformat Ctr, Taejon, South Korea

[4] Yonsei Univ, Dept Appl Stat, Seoul 120749, South Korea

来源：

JOURNAL OF THEORETICAL BIOLOGY | 2008年 / 252卷 / 04期

关键词：

disease network; protein-protein interaction; microarray expression; system biology;

D O I：

10.1016/j.jtbi.2008.02.011

中图分类号：

Q [生物科学];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Identifying candidate genes related to complex diseases or traits and mapping their relationships require a system-level analysis at a cellular scale. The objective of the present study is to systematically analyze the complex effects of interrelated genes and provide a framework for revealing their relationships in association with a specific disease (asthma in this case). We observed that protein-protein interaction (PPI) networks associated with asthma have a power-law connectivity distribution as many other biological networks have. The hub nodes and skeleton substructure of the result network are consistent with the prior knowledge about asthma pathways, and also suggest unknown candidate target genes associated with asthma, including GNB2L1, BRCA1, CBL, and VAV1. In particular, GNB2L1 appears to play a very important role in the asthma network through frequent interactions with key proteins in cellular signaling. This network-based approach represents an alternative method for analyzing the complex effects of candidate genes associated with complex diseases and suggesting a list of gene drug targets. The full list of genes and the analysis details are available in the following online supplementary materials: http://biosoft.kaist.ac.kr:8080/resources/asthma-Ppi. (C) 2008 Elsevier Ltd. All rights reserved.

引用

页码：722 / 731

页数：10

共 70 条

[21] Comparing protein abundance and mRNA expression levels on a genomic scale [J].

Greenbaum, D ;

Colangelo, C ;

Williams, K ;

Gerstein, M .

GENOME BIOLOGY, 2003, 4 (09)

[22] Complementary profiling of gene expression at the transcriptome and proteome levels in Saccharomyces cerevisiae [J].

Griffin, TJ ;

Gygi, SP ;

Ideker, T ;

Rist, B ;

Eng, J ;

Hood, L ;

Aebersold, R .

MOLECULAR & CELLULAR PROTEOMICS, 2002, 1 (04) :323-333

[23]

Hamosh A, 2005, NUCLEIC ACIDS RES, V33, pD514

[24] Evidence for dynamically organized modularity in the yeast protein-protein interaction network [J].

Han, JDJ ;

Bertin, N ;

Hao, T ;

Goldberg, DS ;

Berriz, GF ;

Zhang, LV ;

Dupuy, D ;

Walhout, AJM ;

Cusick, ME ;

Roth, FP ;

Vidal, M .

NATURE, 2004, 430 (6995) :88-93

[25] The Gene Ontology (GO) database and informatics resource [J].

Harris, MA ;

Clark, J ;

Ireland, A ;

Lomax, J ;

Ashburner, M ;

Foulger, R ;

Eilbeck, K ;

Lewis, S ;

Marshall, B ;

Mungall, C ;

Richter, J ;

Rubin, GM ;

Blake, JA ;

Bult, C ;

Dolan, M ;

Drabkin, H ;

Eppig, JT ;

Hill, DP ;

Ni, L ;

Ringwald, M ;

Balakrishnan, R ;

Cherry, JM ;

Christie, KR ;

Costanzo, MC ;

Dwight, SS ;

Engel, S ;

Fisk, DG ;

Hirschman, JE ;

Hong, EL ;

Nash, RS ;

Sethuraman, A ;

Theesfeld, CL ;

Botstein, D ;

Dolinski, K ;

Feierbach, B ;

Berardini, T ;

Mundodi, S ;

Rhee, SY ;

Apweiler, R ;

Barrell, D ;

Camon, E ;

Dimmer, E ;

Lee, V ;

Chisholm, R ;

Gaudet, P ;

Kibbe, W ;

Kishore, R ;

Schwarz, EM ;

Sternberg, P ;

Gwinn, M .

NUCLEIC ACIDS RESEARCH, 2004, 32 :D258-D261

[26] PMA induces the MUC5AC respiratory mucin in human bronchial epithelial cells, via PKC, EGF/TGF-α, Ras/Raf, MEK, ERK and Sp1-dependent mechanisms [J].

Hewson, CA ;

Edbrooke, MR ;

Johnston, SL .

JOURNAL OF MOLECULAR BIOLOGY, 2004, 344 (03) :683-695

[27] The large-scale organization of metabolic networks [J].

Jeong, H ;

Tombor, B ;

Albert, R ;

Oltvai, ZN ;

Barabási, AL .

NATURE, 2000, 407 (6804) :651-654

[28] Lethality and centrality in protein networks [J].

Jeong, H ;

Mason, SP ;

Barabási, AL ;

Oltvai, ZN .

NATURE, 2001, 411 (6833) :41-42

[29] IL-4/IL-13 signaling beyond JAK/STAT [J].

Jiang, H ;

Harris, MB ;

Rothman, P .

JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY, 2000, 105 (06) :1063-1070

[30] IL-4/IL-13 pathway genetics strongly influence serum IgE levels and childhood asthma [J].

Kabesch, M ;

Schedel, M ;

Carr, D ;

Woitsch, B ;

Fritzsch, C ;

Weiland, SK ;

von Mutius, E .

JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY, 2006, 117 (02) :269-274

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