In silico method for inferring genotypes in pedigrees

被引：98

作者：

Burdick, Joshua T.

Chen, Wei-Min

Abecasis, Goncalo R.

Cheung, Vivian G.

机构：

[1] Univ Penn, Dept Pediat, Philadelphia, PA 19104 USA

[2] Univ Michigan, Dept Biostat, Ann Arbor, MI 48109 USA

[3] Univ Michigan, Ctr Stat Genet, Ann Arbor, MI 48109 USA

[4] Univ Penn, Dept Genet, Philadelphia, PA 19104 USA

来源：

NATURE GENETICS | 2006年 / 38卷 / 09期

关键词：

D O I：

10.1038/ng1863

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

Our genotype inference method combines sparse marker data from a linkage scan and high-resolution SNP genotypes for several individuals to infer genotypes for related individuals. We illustrate the method's utility by inferring over 53 million SNP genotypes for 78 children in the Centre d'Etude du Polymorphisme Humain families. The method can be used to obtain high-density genotypes in different family structures, including nuclear families commonly used in complex disease gene mapping studies.

引用

页码：1002 / 1004

页数：3

共 14 条

[1] A general test of association for quantitative traits in nuclear families [J].

Abecasis, GR ;

Cardon, LR ;

Cookson, WOC .

AMERICAN JOURNAL OF HUMAN GENETICS, 2000, 66 (01) :279-292

[2] Merlin-rapid analysis of dense genetic maps using sparse gene flow trees [J].

Abecasis, GR ;

Cherny, SS ;

Cookson, WO ;

Cardon, LR .

NATURE GENETICS, 2002, 30 (01) :97-101

[3] Pedigree tests of transmission disequilibrium (Reprinted from European Journal of Human Genetics, Vol 8, pg 545-551,2000) [J].

Abecasis, Goncalo R. ;

Cookson, William O. C. ;

Cardon, Lon R. .

EUROPEAN JOURNAL OF HUMAN GENETICS, 2017, 25 :S40-S44

[4] A haplotype map of the human genome [J].

Altshuler, D ;

Brooks, LD ;

Chakravarti, A ;

Collins, FS ;

Daly, MJ ;

Donnelly, P ;

Gibbs, RA ;

Belmont, JW ;

Boudreau, A ;

Leal, SM ;

Hardenbol, P ;

Pasternak, S ;

Wheeler, DA ;

Willis, TD ;

Yu, FL ;

Yang, HM ;

Zeng, CQ ;

Gao, Y ;

Hu, HR ;

Hu, WT ;

Li, CH ;

Lin, W ;

Liu, SQ ;

Pan, H ;

Tang, XL ;

Wang, J ;

Wang, W ;

Yu, J ;

Zhang, B ;

Zhang, QR ;

Zhao, HB ;

Zhao, H ;

Zhou, J ;

Gabriel, SB ;

Barry, R ;

Blumenstiel, B ;

Camargo, A ;

Defelice, M ;

Faggart, M ;

Goyette, M ;

Gupta, S ;

Moore, J ;

Nguyen, H ;

Onofrio, RC ;

Parkin, M ;

Roy, J ;

Stahl, E ;

Winchester, E ;

Ziaugra, L ;

Shen, Y .

NATURE, 2005, 437 (7063) :1299-1320

[5] The International HapMap Project [J].

Gibbs, RA ;

Belmont, JW ;

Hardenbol, P ;

Willis, TD ;

Yu, FL ;

Yang, HM ;

Ch'ang, LY ;

Huang, W ;

Liu, B ;

Shen, Y ;

Tam, PKH ;

Tsui, LC ;

Waye, MMY ;

Wong, JTF ;

Zeng, CQ ;

Zhang, QR ;

Chee, MS ;

Galver, LM ;

Kruglyak, S ;

Murray, SS ;

Oliphant, AR ;

Montpetit, A ;

Hudson, TJ ;

Chagnon, F ;

Ferretti, V ;

Leboeuf, M ;

Phillips, MS ;

Verner, A ;

Kwok, PY ;

Duan, SH ;

Lind, DL ;

Miller, RD ;

Rice, JP ;

Saccone, NL ;

Taillon-Miller, P ;

Xiao, M ;

Nakamura, Y ;

Sekine, A ;

Sorimachi, K ;

Tanaka, T ;

Tanaka, Y ;

Tsunoda, T ;

Yoshino, E ;

Bentley, DR ;

Deloukas, P ;

Hunt, S ;

Powell, D ;

Altshuler, D ;

Gabriel, SB ;

Qiu, RZ .

NATURE, 2003, 426 (6968) :789-796

[6] Allegro, a new computer program for multipoint linkage analysis [J].

Gudbjartsson, DF ;

Jonasson, K ;

Frigge, ML ;

Kong, A .

NATURE GENETICS, 2000, 25 (01) :12-13

[7] A genome-wide scalable SNP genotyping assay using microarray technology [J].

Gunderson, KL ;

Steemers, FJ ;

Lee, G ;

Mendoza, LG ;

Chee, MS .

NATURE GENETICS, 2005, 37 (05) :549-554

[8]

Kruglyak L, 1996, AM J HUM GENET, V58, P1347

[9] A 3.9-centimorgan-resolution human single-nucleotide polymorphism linkage map and screening set [J].

Matise, TC ;

Sachidanandam, R ;

Clark, AG ;

Kruglyak, L ;

Wijsman, E ;

Kakol, J ;

Buyske, S ;

Chui, B ;

Cohen, P ;

de Toma, C ;

Ehm, M ;

Glanowski, S ;

He, CS ;

Heil, J ;

Markianos, K ;

McMullen, I ;

Pericak-Vance, MA ;

Silbergleit, A ;

Stein, L ;

Wagner, M ;

Wilson, AF ;

Winick, JD ;

Winn-Deen, ES ;

Yamashiro, CT ;

Cann, HM ;

Lai, E ;

Holden, AL .

AMERICAN JOURNAL OF HUMAN GENETICS, 2003, 73 (02) :271-284

[10] Genotyping over 100,000 SNPs on a pair of oligonucleotide arrays [J].

Matsuzaki, H ;

Dong, SL ;

Loi, H ;

Di, XJ ;

Liu, GY ;

Hubbell, E ;

Law, J ;

Berntsen, T ;

Chadha, M ;

Hui, H ;

Yang, GR ;

Kennedy, GC ;

Webster, TA ;

Cawley, S ;

Walsh, PS ;

Jones, KW ;

Fodor, SPA ;

Mei, R .

NATURE METHODS, 2004, 1 (02) :109-111

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