Population structure in copy number variation and SNPs in the CCL4L chemokine gene (original) (raw)
Iafrate AJ, Feuk L, Rivera MN, Listewnik ML, Donahoe PK, Qi Y et al. Detection of large-scale variation in the human genome. Nat Genet 2004; 36: 949–951. ArticleCASPubMed Google Scholar
Sebat J, Lakshmi B, Troge J, Alexander J, Young J, Lundin P et al. Large-scale copy number polymorphism in the human genome. Science 2004; 305: 525–528. ArticleCASPubMed Google Scholar
Freeman JL, Perry GH, Feuk L, Redon R, McCarroll SA, Altshuler DM et al. Copy number variation: new insights in genome diversity. Genome Res 2006; 16: 949–961. ArticleCASPubMed Google Scholar
Redon R, Ishikawa S, Fitch KR, Feuk L, Perry GH, Andrews TD et al. Global variation in copy number in the human genome. Nature 2006; 444: 444–454. ArticleCASPubMedPubMed Central Google Scholar
Wong KK, deLeeuw RJ, Dosanjh NS, Kimm LR, Cheng Z, Horsman DE et al. A comprehensive analysis of common copy-number variations in the human genome. Am J Hum Genet 2007; 80: 91–104. ArticleCASPubMed Google Scholar
Vollrath D, Nathans J, Davis RW . Tandem array of human visual pigment genes at Xq28. Science 1988; 240: 1669–1672. ArticleCASPubMed Google Scholar
Fellermann K, Stange DE, Schaeffeler E, Schmalzl H, Wehkamp J, Bevins CL et al. A chromosome 8 gene-cluster polymorphism with low human beta-defensin 2 gene copy number predisposes to Crohn disease of the colon. Am J Hum Genet 2006; 79: 439–448. ArticleCASPubMedPubMed Central Google Scholar
Linzmeier RM, Ganz T . Human defensin gene copy number polymorphisms: comprehensive analysis of independent variation in alpha- and beta-defensin regions at 8p22–p23. Genomics 2005; 86: 423–430. ArticleCASPubMed Google Scholar
Aitman TJ, Dong R, Vyse TJ, Norsworthy PJ, Johnson MD, Smith J et al. Copy number polymorphism in Fcgr3 predisposes to glomerulonephritis in rats and humans. Nature 2006; 439: 851–855. ArticleCASPubMed Google Scholar
Luster AD . Chemokines—chemotactic cytokines that mediate inflammation. N Engl J Med 1998; 338: 436–445. ArticleCASPubMed Google Scholar
Zlotnik A, Yoshie O . Chemokines: a new classification system and their role in immunity. Immunity 2000; 12: 121–127. ArticleCASPubMed Google Scholar
Colobran R, Pujol-Borrell R, Armengol MP, Juan M . The chemokine network. I. How the genomic organization of chemokines contains clues for deciphering their functional complexity. Clin Exp Immunol 2007; 148: 208–217. ArticleCASPubMedPubMed Central Google Scholar
Menten P, Wuyts A, Van Damme J . Macrophage inflammatory protein-1. Cytokine Growth Factor Rev 2002; 13: 455–481. ArticleCASPubMed Google Scholar
Tasaki Y, Fukuda S, Iio M, Miura R, Imai T, Sugano S et al. Chemokine PARC gene (SCYA18) generated by fusion of two MIP-1alpha/LD78alpha-like genes. Genomics 1999; 55: 353–357. ArticleCASPubMed Google Scholar
Menten P, Struyf S, Schutyser E, Wuyts A, De Clercq E, Schols D et al. The LD78beta isoform of MIP-1alpha is the most potent CCR5 agonist and HIV-1-inhibiting chemokine. J Clin Invest 1999; 104: R1–R5. ArticleCASPubMedPubMed Central Google Scholar
Modi WS, Bergeron J, Sanford M . The human MIP-1beta chemokine is encoded by two paralogous genes, ACT-2 and LAG-1. Immunogenetics 2001; 53: 543–549. ArticleCASPubMed Google Scholar
Townson JR, Barcellos LF, Nibbs RJ . Gene copy number regulates the production of the human chemokine CCL3-L1. Eur J Immunol 2002; 32: 3016–3026. ArticleCASPubMed Google Scholar
Colobran R, Adreani P, Ashhab Y, Llano A, Esté JA, Dominguez O et al. Multiple products derived from two CCL4 loci: high incidence of a new polymorphism in HIV+ patients. J Immunol 2005; 174: 5655–5664. ArticleCASPubMed Google Scholar
Modi WS . CCL3L1 and CCL4L1 chemokine genes are located in a segmental duplication at chromosome 17q12. Genomics 2004; 83: 735–738. ArticleCASPubMed Google Scholar
Gonzalez E, Kulkarni H, Bolivar H, Mangano A, Sanchez R, Catano G et al. The influence of CCL3L1 gene-containing segmental duplications on HIV-1/AIDS susceptibility. Science 2005; 307: 1434–1440. ArticleCASPubMed Google Scholar
Capoulade-Metay C, Meyer L, Tran T, Persoz A, Bourdais A, Dudoit Y et al. Influence of the R22H variant of macrophage inflammatory protein 1beta/Lag-1 in HIV-1 survival. AIDS 2005; 19: 831–833. ArticleCASPubMed Google Scholar
Sharp AJ, Cheng Z, Eichler EE . Structural variation of the human genome. Annu Rev Genomics Hum Genet 2006; 7: 407–442. ArticleCASPubMed Google Scholar
Rosenberg NA . Standardized subsets of the HGDP-CEPH Human Genome Diversity Cell Line Panel, accounting for atypical and duplicated samples and pairs of close relatives. Ann Hum Genet 2006; 70: 841–847. ArticleCASPubMed Google Scholar
Engle LJ, Simpson CL, Landers JE . Using high-throughput SNP technologies to study cancer. Oncogene 2006; 25: 1594–1601. ArticleCASPubMed Google Scholar
Fan JB, Chee MS, Gunderson KL . Highly parallel genomic assays. Nat Rev Genet 2006; 7: 632–644. ArticleCASPubMed Google Scholar
Eichler EE, Nickerson DA, Altshuler D, Bowcock AM, Brooks LD, Carter NP et al. Completing the map of human genetic variation. Nature 2007; 447: 161–165. ArticleCASPubMedPubMed Central Google Scholar
Goidts V, Cooper DN, Armengol L, Schempp W, Conroy J, Estivill X et al. Complex patterns of copy number variation at sites of segmental duplications: an important category of structural variation in the human genome. Hum Genet 2006; 120: 270–284. ArticleCASPubMed Google Scholar
Sharp AJ, Locke DP, McGrath SD, Cheng Z, Bailey JA, Vallente RU et al. Segmental duplications and copy-number variation in the human genome. Am J Hum Genet 2005; 77: 78–88. ArticleCASPubMedPubMed Central Google Scholar
Hinds DA, Kloek AP, Jen M, Chen X, Frazer KA . Common deletions and SNPs are in linkage disequilibrium in the human genome. Nat Genet 2006; 38: 82–85. ArticleCASPubMed Google Scholar
Cann HM, de Toma C, Cazes L, Legrand MF, Morel V, Piouffre L et al. A human genome diversity cell line panel. Science 2002; 296: 261–262. ArticleCASPubMed Google Scholar
Schneider S KJ-M, Roessli D, Excoffier L . Arlequin Version 1.1: A Software for Population Genetic Data Analysis. Genetics and Biometry Laboratory, University of Geneva. Genetics and Biometry Laboratory, University of Geneva: Geneva, 1997. Google Scholar
Excoffier L, Smouse PE, Quattro JM . Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics 1992; 131: 479–491. CASPubMedPubMed Central Google Scholar