메뉴 건너뛰기




Volumn 16, Issue 1, 2015, Pages

CPAG: Software for leveraging pleiotropy in GWAS to reveal similarity between human traits links plasma fatty acids and intestinal inflammation

Author keywords

[No Author keywords available]

Indexed keywords

PALMITOLEIC ACID; MONOUNSATURATED FATTY ACID;

EID: 84941630395     PISSN: 14747596     EISSN: 1474760X     Source Type: Journal    
DOI: 10.1186/s13059-015-0722-1     Document Type: Article
Times cited : (18)

References (57)
  • 7
    • 28144441356 scopus 로고    scopus 로고
    • Replication of putative candidate-gene associations with rheumatoid arthritis in >4,000 samples from North America and Sweden: association of susceptibility with PTPN22, CTLA4, and PADI4
    • Plenge RM, Padyukov L, Remmers EF, Purcell S, Lee AT, Karlson EW, et al. Replication of putative candidate-gene associations with rheumatoid arthritis in >4,000 samples from North America and Sweden: association of susceptibility with PTPN22, CTLA4, and PADI4. Am J Hum Genet. 2005;77:1044-60.
    • (2005) Am J Hum Genet. , vol.77 , pp. 1044-1060
    • Plenge, R.M.1    Padyukov, L.2    Remmers, E.F.3    Purcell, S.4    Lee, A.T.5    Karlson, E.W.6
  • 8
    • 48349136889 scopus 로고    scopus 로고
    • Genome-wide association defines more than 30 distinct susceptibility loci for Crohn's disease
    • Barrett JC, Hansoul S, Nicolae DL, Cho JH, Duerr RH, Rioux JD, et al. Genome-wide association defines more than 30 distinct susceptibility loci for Crohn's disease. Nat Genet. 2008;40:955-62.
    • (2008) Nat Genet. , vol.40 , pp. 955-962
    • Barrett, J.C.1    Hansoul, S.2    Nicolae, D.L.3    Cho, J.H.4    Duerr, R.H.5    Rioux, J.D.6
  • 9
    • 84941659970 scopus 로고    scopus 로고
    • Genetic association of the R620W polymorphism of protein tyrosine phosphatase PTPN22 with human SLE
    • Kyogoku C, Langefeld CD, Ortmann WA, Selby S, Carlton VEH, Ramos P, et al. Genetic association of the R620W polymorphism of protein tyrosine phosphatase PTPN22 with human SLE. Arthritis Rheum. 2004;50:S258-8.
    • (2004) Arthritis Rheum. , vol.50 , pp. S258-S268
    • Kyogoku, C.1    Langefeld, C.D.2    Ortmann, W.A.3    Selby, S.4    Carlton, V.E.H.5    Ramos, P.6
  • 10
    • 34347341846 scopus 로고    scopus 로고
    • Robust associations of four new chromosome regions from genome-wide analyses of type 1 diabetes
    • Todd JA, Walker NM, Cooper JD, Smyth DJ, Downes K, Plagnol V, et al. Robust associations of four new chromosome regions from genome-wide analyses of type 1 diabetes. Nat Genet. 2007;39:857-64.
    • (2007) Nat Genet. , vol.39 , pp. 857-864
    • Todd, J.A.1    Walker, N.M.2    Cooper, J.D.3    Smyth, D.J.4    Downes, K.5    Plagnol, V.6
  • 11
    • 80455145185 scopus 로고    scopus 로고
    • Prediction of disease and phenotype associations from genome-wide association studies
    • Lewis SN, Nsoesie E, Weeks C, Qiao D, Zhang L. Prediction of disease and phenotype associations from genome-wide association studies. PLoS One. 2011;6, e27175.
    • (2011) PLoS One. , vol.6
    • Lewis, S.N.1    Nsoesie, E.2    Weeks, C.3    Qiao, D.4    Zhang, L.5
  • 12
    • 84899859780 scopus 로고    scopus 로고
    • Disease risk factors identified through shared genetic architecture and electronic medical records
    • 234ra57
    • Li L, Ruau DJ, Patel CJ, Weber SC, Chen R, Tatonetti NP, et al. Disease risk factors identified through shared genetic architecture and electronic medical records. Sci Transl Med. 2014;6:234ra57.
    • (2014) Sci Transl Med , vol.6
    • Li, L.1    Ruau, D.J.2    Patel, C.J.3    Weber, S.C.4    Chen, R.5    Tatonetti, N.P.6
  • 13
    • 77956331627 scopus 로고    scopus 로고
    • Integrating common and rare genetic variation in diverse human populations
    • International HapMap C, Altshuler DM, Gibbs RA, Peltonen L, Altshuler DM, Gibbs RA, et al. Integrating common and rare genetic variation in diverse human populations. Nature. 2010;467:52-8.
    • (2010) Nature. , vol.467 , pp. 52-58
    • Altshuler, D.M.1    Gibbs, R.A.2    Peltonen, L.3    Altshuler, D.M.4    Gibbs, R.A.5
  • 15
    • 33750431743 scopus 로고    scopus 로고
    • Genetic and environmental correlations between obesity phenotypes and age at menarche
    • Wang W, Zhao LJ, Liu YZ, Recker RR, Deng HW. Genetic and environmental correlations between obesity phenotypes and age at menarche. Int J Obes (Lond). 2006;30:1595-600.
    • (2006) Int J Obes (Lond) , vol.30 , pp. 1595-1600
    • Wang, W.1    Zhao, L.J.2    Liu, Y.Z.3    Recker, R.R.4    Deng, H.W.5
  • 17
    • 13544268567 scopus 로고    scopus 로고
    • A new statistical approach for assessing similarity of species composition with incidence and abundance data
    • Chao A, Chazdon RL, Colwell RK, Shen T-J. A new statistical approach for assessing similarity of species composition with incidence and abundance data. Ecol Lett. 2005;8:148-59.
    • (2005) Ecol Lett. , vol.8 , pp. 148-159
    • Chao, A.1    Chazdon, R.L.2    Colwell, R.K.3    Shen, T.-J.4
  • 18
    • 0003456793 scopus 로고    scopus 로고
    • 3rd ed
    • Krebs CJ. Ecological methodology. 3rd ed. 2014. http://www.zoology.ubc.ca/~krebs/books.html . Accessed 1 July 2014.
    • (2014) Ecological methodology
    • Krebs, CJ.1
  • 19
    • 33745244776 scopus 로고    scopus 로고
    • Abundance-based similarity indices and their estimation when there are unseen species in samples
    • Chao A, Chazdon RL, Colwell RK, Shen TJ. Abundance-based similarity indices and their estimation when there are unseen species in samples. Biometrics. 2006;62:361-71.
    • (2006) Biometrics. , vol.62 , pp. 361-371
    • Chao, A.1    Chazdon, R.L.2    Colwell, R.K.3    Shen, T.J.4
  • 20
    • 84882576465 scopus 로고    scopus 로고
    • Biological variation and hemoglobin A1c: relevance to diabetes management and complications
    • Chalew SA, McCarter RJ, Hempe JM. Biological variation and hemoglobin A1c: relevance to diabetes management and complications. Pediatr Diabetes. 2013;14:391-8.
    • (2013) Pediatr Diabetes. , vol.14 , pp. 391-398
    • Chalew, S.A.1    McCarter, R.J.2    Hempe, J.M.3
  • 21
    • 84859176868 scopus 로고    scopus 로고
    • Psoriasis patients are enriched for genetic variants that protect against HIV-1 disease
    • Chen H, Hayashi G, Lai OY, Dilthey A, Kuebler PJ, Wong TV, et al. Psoriasis patients are enriched for genetic variants that protect against HIV-1 disease. PLoS Genet. 2012;8, e1002514.
    • (2012) PLoS Genet. , vol.8
    • Chen, H.1    Hayashi, G.2    Lai, O.Y.3    Dilthey, A.4    Kuebler, P.J.5    Wong, T.V.6
  • 22
    • 84873722367 scopus 로고    scopus 로고
    • Apolipoprotein E and Alzheimer disease: risk, mechanisms and therapy
    • Liu CC, Kanekiyo T, Xu H, Bu G. Apolipoprotein E and Alzheimer disease: risk, mechanisms and therapy. Nat Rev Neurol. 2013;9:106-18.
    • (2013) Nat Rev Neurol. , vol.9 , pp. 106-118
    • Liu, C.C.1    Kanekiyo, T.2    Xu, H.3    Bu, G.4
  • 23
    • 43449139402 scopus 로고    scopus 로고
    • Efficacy and safety of ustekinumab, a human interleukin-12/23 monoclonal antibody, in patients with psoriasis: 52-week results from a randomised, double-blind, placebo-controlled trial (PHOENIX 2)
    • Papp KA, Langley RG, Lebwohl M, Krueger GG, Szapary P, Yeilding N, et al. Efficacy and safety of ustekinumab, a human interleukin-12/23 monoclonal antibody, in patients with psoriasis: 52-week results from a randomised, double-blind, placebo-controlled trial (PHOENIX 2). Lancet. 2008;371:1675-84.
    • (2008) Lancet. , vol.371 , pp. 1675-1684
    • Papp, K.A.1    Langley, R.G.2    Lebwohl, M.3    Krueger, G.G.4    Szapary, P.5    Yeilding, N.6
  • 24
    • 43449111187 scopus 로고    scopus 로고
    • Efficacy and safety of ustekinumab, a human interleukin-12/23 monoclonal antibody, in patients with psoriasis: 76-week results from a randomised, double-blind, placebo-controlled trial (PHOENIX 1)
    • Leonardi CL, Kimball AB, Papp KA, Yeilding N, Guzzo C, Wang Y, et al. Efficacy and safety of ustekinumab, a human interleukin-12/23 monoclonal antibody, in patients with psoriasis: 76-week results from a randomised, double-blind, placebo-controlled trial (PHOENIX 1). Lancet. 2008;371:1665-74.
    • (2008) Lancet. , vol.371 , pp. 1665-1674
    • Leonardi, C.L.1    Kimball, A.B.2    Papp, K.A.3    Yeilding, N.4    Guzzo, C.5    Wang, Y.6
  • 25
    • 53049091561 scopus 로고    scopus 로고
    • A randomized trial of Ustekinumab, a human interleukin-12/23 monoclonal antibody, in patients with moderate-to-severe Crohn's disease
    • Sandborn WJ, Feagan BG, Fedorak RN, Scherl E, Fleisher MR, Katz S, et al. A randomized trial of Ustekinumab, a human interleukin-12/23 monoclonal antibody, in patients with moderate-to-severe Crohn's disease. Gastroenterology. 2008;135:1130-41.
    • (2008) Gastroenterology. , vol.135 , pp. 1130-1141
    • Sandborn, W.J.1    Feagan, B.G.2    Fedorak, R.N.3    Scherl, E.4    Fleisher, M.R.5    Katz, S.6
  • 27
    • 84878092875 scopus 로고    scopus 로고
    • Genome-wide association study identifies novel loci associated with concentrations of four plasma phospholipid fatty acids in the de novo lipogenesis pathway: results from the Cohorts for Heart and Aging Research in Genomic Epidemiology (CHARGE) consortium
    • Wu JH, Lemaitre RN, Manichaikul A, Guan W, Tanaka T, Foy M, et al. Genome-wide association study identifies novel loci associated with concentrations of four plasma phospholipid fatty acids in the de novo lipogenesis pathway: results from the Cohorts for Heart and Aging Research in Genomic Epidemiology (CHARGE) consortium. Circ Cardiovasc Genet. 2013;6:171-83.
    • (2013) Circ Cardiovasc Genet. , vol.6 , pp. 171-183
    • Wu, J.H.1    Lemaitre, R.N.2    Manichaikul, A.3    Guan, W.4    Tanaka, T.5    Foy, M.6
  • 28
    • 79953773560 scopus 로고    scopus 로고
    • Dietary intake and risk of developing inflammatory bowel disease: a systematic review of the literature
    • Hou JK, Abraham B, El-Serag H. Dietary intake and risk of developing inflammatory bowel disease: a systematic review of the literature. Am J Gastroenterol. 2011;106:563-73.
    • (2011) Am J Gastroenterol. , vol.106 , pp. 563-573
    • Hou, J.K.1    Abraham, B.2    El-Serag, H.3
  • 29
    • 34548134044 scopus 로고    scopus 로고
    • Imbalances in dietary consumption of fatty acids, vegetables, and fruits are associated with risk for Crohn's disease in children
    • Amre DK, D'Souza S, Morgan K, Seidman G, Lambrette P, Grimard G, et al. Imbalances in dietary consumption of fatty acids, vegetables, and fruits are associated with risk for Crohn's disease in children. Am J Gastroenterol. 2007;102:2016-25.
    • (2007) Am J Gastroenterol. , vol.102 , pp. 2016-2025
    • Amre, D.K.1    D'Souza, S.2    Morgan, K.3    Seidman, G.4    Lambrette, P.5    Grimard, G.6
  • 30
    • 18244376933 scopus 로고    scopus 로고
    • Dietary risk factors for inflammatory bowel disease: a multicenter case-control study in Japan
    • Sakamoto N, Kono S, Wakai K, Fukuda Y, Satomi M, Shimoyama T, et al. Dietary risk factors for inflammatory bowel disease: a multicenter case-control study in Japan. Inflamm Bowel Dis. 2005;11:154-63.
    • (2005) Inflamm Bowel Dis. , vol.11 , pp. 154-163
    • Sakamoto, N.1    Kono, S.2    Wakai, K.3    Fukuda, Y.4    Satomi, M.5    Shimoyama, T.6
  • 31
    • 0033999250 scopus 로고    scopus 로고
    • Altered lipid profile, lipoprotein composition, and oxidant and antioxidant status in pediatric Crohn disease
    • Levy E, Rizwan Y, Thibault L, Lepage G, Brunet S, Bouthillier L, et al. Altered lipid profile, lipoprotein composition, and oxidant and antioxidant status in pediatric Crohn disease. Am J Clin Nutr. 2000;71:807-15.
    • (2000) Am J Clin Nutr. , vol.71 , pp. 807-815
    • Levy, E.1    Rizwan, Y.2    Thibault, L.3    Lepage, G.4    Brunet, S.5    Bouthillier, L.6
  • 33
    • 34347262689 scopus 로고    scopus 로고
    • Chemically induced mouse models of intestinal inflammation
    • Wirtz S, Neufert C, Weigmann B, Neurath MF. Chemically induced mouse models of intestinal inflammation. Nat Protoc. 2007;2:541-6.
    • (2007) Nat Protoc. , vol.2 , pp. 541-546
    • Wirtz, S.1    Neufert, C.2    Weigmann, B.3    Neurath, M.F.4
  • 34
    • 78650386960 scopus 로고    scopus 로고
    • A chemical enterocolitis model in zebrafish larvae that is dependent on microbiota and responsive to pharmacological agents
    • Oehlers SH, Flores MV, Okuda KS, Hall CJ, Crosier KE, Crosier PS. A chemical enterocolitis model in zebrafish larvae that is dependent on microbiota and responsive to pharmacological agents. Dev Dyn. 2011;240:288-98.
    • (2011) Dev Dyn. , vol.240 , pp. 288-298
    • Oehlers, S.H.1    Flores, M.V.2    Okuda, K.S.3    Hall, C.J.4    Crosier, K.E.5    Crosier, P.S.6
  • 35
    • 84866613234 scopus 로고    scopus 로고
    • Conjugated linoleic acid modulates immune responses in patients with mild to moderately active Crohn's disease
    • Bassaganya-Riera J, Hontecillas R, Horne WT, Sandridge M, Herfarth HH, Bloomfeld R, et al. Conjugated linoleic acid modulates immune responses in patients with mild to moderately active Crohn's disease. Clin Nutr. 2012;31:721-7.
    • (2012) Clin Nutr. , vol.31 , pp. 721-727
    • Bassaganya-Riera, J.1    Hontecillas, R.2    Horne, W.T.3    Sandridge, M.4    Herfarth, H.H.5    Bloomfeld, R.6
  • 37
    • 84865552982 scopus 로고    scopus 로고
    • Functional genetic screen of human diversity reveals that a methionine salvage enzyme regulates inflammatory cell death
    • Ko DC, Gamazon ER, Shukla KP, Pfuetzner RA, Whittington D, Holden TD, et al. Functional genetic screen of human diversity reveals that a methionine salvage enzyme regulates inflammatory cell death. Proc Natl Acad Sci U S A. 2012;109:E2343-52.
    • (2012) Proc Natl Acad Sci U S A. , vol.109 , pp. E2343-E2352
    • Ko, D.C.1    Gamazon, E.R.2    Shukla, K.P.3    Pfuetzner, R.A.4    Whittington, D.5    Holden, T.D.6
  • 38
    • 68249100715 scopus 로고    scopus 로고
    • A genome-wide in vitro bacterial-infection screen reveals human variation in the host response associated with inflammatory disease
    • Ko DC, Shukla KP, Fong C, Wasnick M, Brittnacher MJ, Wurfel MM, et al. A genome-wide in vitro bacterial-infection screen reveals human variation in the host response associated with inflammatory disease. Am J Hum Genet. 2009;85:214-27.
    • (2009) Am J Hum Genet. , vol.85 , pp. 214-227
    • Ko, D.C.1    Shukla, K.P.2    Fong, C.3    Wasnick, M.4    Brittnacher, M.J.5    Wurfel, M.M.6
  • 40
    • 12444309815 scopus 로고    scopus 로고
    • Targeted deletion of caspase-1 reduces early mortality and left ventricular dilatation following myocardial infarction
    • Frantz S, Ducharme A, Sawyer D, Rohde LE, Kobzik L, Fukazawa R, et al. Targeted deletion of caspase-1 reduces early mortality and left ventricular dilatation following myocardial infarction. J Mol Cell Cardiol. 2003;35:685-94.
    • (2003) J Mol Cell Cardiol. , vol.35 , pp. 685-694
    • Frantz, S.1    Ducharme, A.2    Sawyer, D.3    Rohde, L.E.4    Kobzik, L.5    Fukazawa, R.6
  • 42
  • 43
    • 84879355400 scopus 로고    scopus 로고
    • The NLRP3 inflammasome is up-regulated in cardiac fibroblasts and mediates myocardial ischaemia-reperfusion injury
    • Sandanger O, Ranheim T, Vinge LE, Bliksoen M, Alfsnes K, Finsen AV, et al. The NLRP3 inflammasome is up-regulated in cardiac fibroblasts and mediates myocardial ischaemia-reperfusion injury. Cardiovasc Res. 2013;99:164-74.
    • (2013) Cardiovasc Res. , vol.99 , pp. 164-174
    • Sandanger, O.1    Ranheim, T.2    Vinge, L.E.3    Bliksoen, M.4    Alfsnes, K.5    Finsen, A.V.6
  • 44
    • 70350346689 scopus 로고    scopus 로고
    • Disruption of FADS2 gene in mice impairs male reproduction and causes dermal and intestinal ulceration
    • Stroud CK, Nara TY, Roqueta-Rivera M, Radlowski EC, Lawrence P, Zhang Y, et al. Disruption of FADS2 gene in mice impairs male reproduction and causes dermal and intestinal ulceration. J Lipid Res. 2009;50:1870-80.
    • (2009) J Lipid Res. , vol.50 , pp. 1870-1880
    • Stroud, C.K.1    Nara, T.Y.2    Roqueta-Rivera, M.3    Radlowski, E.C.4    Lawrence, P.5    Zhang, Y.6
  • 45
    • 84883407838 scopus 로고    scopus 로고
    • Understanding human variation in infectious disease susceptibility through clinical and cellular GWAS
    • Ko DC, Urban TJ. Understanding human variation in infectious disease susceptibility through clinical and cellular GWAS. PLoS Pathog. 2013;9:e1003424.
    • (2013) PLoS Pathog. , vol.9
    • Ko, D.C.1    Urban, T.J.2
  • 46
    • 84975742565 scopus 로고    scopus 로고
    • A map of human genome variation from population-scale sequencing
    • Consortium GP. A map of human genome variation from population-scale sequencing. Nature. 2010;467:1061-73.
    • (2010) Nature. , vol.467 , pp. 1061-1073
    • Consortium, G.P.1
  • 48
    • 84980090975 scopus 로고
    • The distribution of the flora in the alpine zone
    • Jaccard P. The distribution of the flora in the alpine zone. New Phytol. 1912;11:37-50.
    • (1912) New Phytol. , vol.11 , pp. 37-50
    • Jaccard, P.1
  • 49
    • 0002969802 scopus 로고
    • A method of establishing groups of equal amplitude in plant sociology based on similarity of species and its application to analyses of the vegetation on Danish commons
    • Sørensen T. A method of establishing groups of equal amplitude in plant sociology based on similarity of species and its application to analyses of the vegetation on Danish commons. Kongelige Danske Videnskabernes Selskab. 1948;5:1-34.
    • (1948) Kongelige Danske Videnskabernes Selskab. , vol.5 , pp. 1-34
    • Sørensen, T.1
  • 50
    • 0001020041 scopus 로고
    • Measuring of interspecific association and similarity between communities
    • Kyushu University, Series E (Biology)
    • Morisita M. Measuring of interspecific association and similarity between communities. In: Memoirs of the Faculty of Science, Kyushu University, Series E (Biology). 1959. p. 65-80.
    • (1959) Memoirs of the Faculty of Science , pp. 65-80
    • Morisita, M.1
  • 51
    • 0001427876 scopus 로고
    • Measurement of overlap in comparative ecological studies
    • Horn HS. Measurement of overlap in comparative ecological studies. Am Nat. 1966;100:419.
    • (1966) Am Nat. , vol.100 , pp. 419
    • Horn, H.S.1
  • 52
    • 79955549678 scopus 로고    scopus 로고
    • A high-resolution C. elegans essential gene network based on phenotypic profiling of a complex tissue
    • Green RA, Kao HL, Audhya A, Arur S, Mayers JR, Fridolfsson HN, et al. A high-resolution C. elegans essential gene network based on phenotypic profiling of a complex tissue. Cell. 2011;145:470-82.
    • (2011) Cell , vol.145 , pp. 470-482
    • Green, R.A.1    Kao, H.L.2    Audhya, A.3    Arur, S.4    Mayers, J.R.5    Fridolfsson, H.N.6
  • 54
    • 84863285086 scopus 로고    scopus 로고
    • Systematic identification of type I and type II interferon-induced antiviral factors
    • Liu SY, Sanchez DJ, Aliyari R, Lu S, Cheng G. Systematic identification of type I and type II interferon-induced antiviral factors. Proc Natl Acad Sci U S A. 2012;109:4239-44.
    • (2012) Proc Natl Acad Sci U S A. , vol.109 , pp. 4239-4244
    • Liu, S.Y.1    Sanchez, D.J.2    Aliyari, R.3    Lu, S.4    Cheng, G.5
  • 55
    • 0036330904 scopus 로고    scopus 로고
    • Plasma total and free fatty acids composition in human non-alcoholic steatohepatitis
    • de Almeida IT, Cortez-Pinto H, Fidalgo G, Rodrigues D, Camilo ME. Plasma total and free fatty acids composition in human non-alcoholic steatohepatitis. Clin Nutr. 2002;21:219-23.
    • (2002) Clin Nutr. , vol.21 , pp. 219-223
    • Almeida, I.T.1    Cortez-Pinto, H.2    Fidalgo, G.3    Rodrigues, D.4    Camilo, M.E.5
  • 56
    • 34249067923 scopus 로고    scopus 로고
    • The zebrafish lysozyme C promoter drives myeloid-specific expression in transgenic fish
    • Hall C, Flores MV, Storm T, Crosier K, Crosier P. The zebrafish lysozyme C promoter drives myeloid-specific expression in transgenic fish. BMC Dev Biol. 2007;7:42.
    • (2007) BMC Dev Biol. , vol.7 , pp. 42
    • Hall, C.1    Flores, M.V.2    Storm, T.3    Crosier, K.4    Crosier, P.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.