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Volumn 4, Issue 8, 2009, Pages

Design of a high density SNP genotyping assay in the pig using SNPs identified and characterized by next generation sequencing technology

(27)  Ramos, Antonio M a   Crooijmans, Richard P M A a   Affara, Nabeel A b   Amaral, Andreia J a   Archibald, Alan L c   Beever, Jonathan E d   Bendixen, Christian e   Churcher, Carol f   Clark, Richard f   Dehais, Patrick g   Hansen, Mark S h   Hedegaard, Jakob e   Hu, Zhi Liang i   Kerstens, Hindrik H a   Law, Andy S c   Megens, Hendrik Jan a   Milan, Denis g   Nonneman, Danny J j   Rohrer, Gary A j   Rothschild, Max F i   more..


Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL GENETICS; ARTICLE; CONTROLLED STUDY; DNA POLYMORPHISM; GENE FREQUENCY; GENE IDENTIFICATION; GENE LIBRARY; GENE LOCUS; GENE SEQUENCE; GENE TECHNOLOGY; GENOTYPE; NONHUMAN; RELIABILITY; SCORING SYSTEM; SINGLE NUCLEOTIDE POLYMORPHISM; SWINE; VALIDATION PROCESS; ANIMAL; DNA SEQUENCE; GENETICS; METHODOLOGY; SPECIES DIFFERENCE; VALIDATION STUDY;

EID: 68349137618     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0006524     Document Type: Article
Times cited : (525)

References (30)
  • 1
    • 33846836962 scopus 로고    scopus 로고
    • Animal QTLdb: Beyond a repository. A public platform for QTL comparisons and integration with diverse types of structural genomic information
    • Hu Z-L, Reecy JM (2007) Animal QTLdb: beyond a repository. A public platform for QTL comparisons and integration with diverse types of structural genomic information. Mamm Genom 18(1): 1-4.
    • (2007) Mamm Genom , vol.18 , Issue.1 , pp. 1-4
    • Hu, Z.-L.1    Reecy, J.M.2
  • 3
    • 18844429813 scopus 로고    scopus 로고
    • Estimation of the extent of linkage disequilibrium in seven regions of the porcine genome
    • Jungerius BJ, Gu J, Crooijmans RPMA, Poel JJ, Groenen MAM, et al. (2005) Estimation of the extent of linkage disequilibrium in seven regions of the porcine genome. Anim Biotechnol 16: 41-54.
    • (2005) Anim Biotechnol , vol.16 , pp. 41-54
    • Jungerius, B.J.1    Gu, J.2    Crooijmans, R.P.M.A.3    Poel, J.J.4    Groenen, M.A.M.5
  • 5
    • 33847011041 scopus 로고    scopus 로고
    • Characterizing linkage disequilibrium in pig populations
    • Du FX, Clutter AC, Lohuis MM (2007) Characterizing linkage disequilibrium in pig populations. Int J Biol Sci 3: 166-178.
    • (2007) Int J Biol Sci , vol.3 , pp. 166-178
    • Du, F.X.1    Clutter, A.C.2    Lohuis, M.M.3
  • 6
    • 53649088131 scopus 로고    scopus 로고
    • Applications of next-generation sequencing technologies in functional genomics
    • Morozova O, Marra MA (2008) Applications of next-generation sequencing technologies in functional genomics. Genomics 92(5): 255-264.
    • (2008) Genomics , vol.92 , Issue.5 , pp. 255-264
    • Morozova, O.1    Marra, M.A.2
  • 8
    • 10644283823 scopus 로고    scopus 로고
    • Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution
    • Hillier LW, et al. (2004) Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution. Nature 432(7018): 695-716.
    • (2004) Nature , vol.432 , Issue.7018 , pp. 695-716
    • Hillier, L.W.1
  • 9
    • 28644447707 scopus 로고    scopus 로고
    • Genome sequence, comparative analysis and haplotype structure of the domestic dog
    • Lindblad-Toh K, Wade CM, Mikkelsen TS, Karlsson EK, Jaffe DB, et al. (2005) Genome sequence, comparative analysis and haplotype structure of the domestic dog. Nature 438(7069): 803-819.
    • (2005) Nature , vol.438 , Issue.7069 , pp. 803-819
    • Lindblad-Toh, K.1    Wade, C.M.2    Mikkelsen, T.S.3    Karlsson, E.K.4    Jaffe, D.B.5
  • 10
    • 36048982458 scopus 로고    scopus 로고
    • Pontius JU, Mullikin JC, Agencourt Sequencing Team, Lindblad-Toh K, et al. (2007) Initial sequence and comparative analysis of the cat genome. Genome Res 17(11): 1675-1689.
    • Pontius JU, Mullikin JC, Agencourt Sequencing Team, Lindblad-Toh K, et al. (2007) Initial sequence and comparative analysis of the cat genome. Genome Res 17(11): 1675-1689.
  • 11
    • 20444420474 scopus 로고    scopus 로고
    • Swine Genome Sequencing Consortium (SGSC): A strategic roadmap for sequencing the pig genome
    • Schook LB, Beever JE, Rogers J, Humphray S, Archibald A, et al. (2005) Swine Genome Sequencing Consortium (SGSC): A strategic roadmap for sequencing the pig genome. Comp Funct Genomics 6: 251-255.
    • (2005) Comp Funct Genomics , vol.6 , pp. 251-255
    • Schook, L.B.1    Beever, J.E.2    Rogers, J.3    Humphray, S.4    Archibald, A.5
  • 12
    • 38549141652 scopus 로고    scopus 로고
    • Lessons learned from the initial sequencing of the pig genome: Comparative analysis of an 8 MB region of pig chromosome 17
    • Hart EA, Caccamo M, Harrow JL, Humphray S, Gilbert JGR, et al. (2007) Lessons learned from the initial sequencing of the pig genome: comparative analysis of an 8 MB region of pig chromosome 17. Genome Biol 8: R168.
    • (2007) Genome Biol , vol.8
    • Hart, E.A.1    Caccamo, M.2    Harrow, J.L.3    Humphray, S.4    Gilbert, J.G.R.5
  • 13
    • 40149098690 scopus 로고    scopus 로고
    • SNP discovery and allele frequency estimation by deep sequencing of reduced representation libraries
    • Van Tassell CP, Smith TP, Matukumalli LK, Taylor JF, Schnabel RD, et al. (2008) SNP discovery and allele frequency estimation by deep sequencing of reduced representation libraries. Nat Methods 5(3): 247-252.
    • (2008) Nat Methods , vol.5 , Issue.3 , pp. 247-252
    • Van Tassell, C.P.1    Smith, T.P.2    Matukumalli, L.K.3    Taylor, J.F.4    Schnabel, R.D.5
  • 14
    • 0035045051 scopus 로고    scopus 로고
    • Prediction of total genetic value using genome-wide dense marker maps
    • Meuwissen TH, Hayes BJ, Goddard ME (2001) Prediction of total genetic value using genome-wide dense marker maps. Genetics 157: 1819-1829.
    • (2001) Genetics , vol.157 , pp. 1819-1829
    • Meuwissen, T.H.1    Hayes, B.J.2    Goddard, M.E.3
  • 15
    • 67651107321 scopus 로고    scopus 로고
    • Development and characterization of a high density SNP genotyping assay for cattle. PLoS ONE
    • Matukumalli KL, Lawley CT, Schnabel RD, Taylor JF, Allan MF, et al. (2009) Development and characterization of a high density SNP genotyping assay for cattle. PLoS ONE. PLoS ONE 4(4): e5350.
    • (2009) PLoS ONE , vol.4 , Issue.4
    • Matukumalli, K.L.1    Lawley, C.T.2    Schnabel, R.D.3    Taylor, J.F.4    Allan, M.F.5
  • 16
    • 35648953308 scopus 로고    scopus 로고
    • Efficient mapping of mendelian traits in dogs through genome-wide association
    • Karlsson EK, Baranowska I, Wade CM, Salmon Hillbertz NH, Zody MC, et al. (2007) Efficient mapping of mendelian traits in dogs through genome-wide association. Nat Genet 39(11): 1321-1328.
    • (2007) Nat Genet , vol.39 , Issue.11 , pp. 1321-1328
    • Karlsson, E.K.1    Baranowska, I.2    Wade, C.M.3    Salmon Hillbertz, N.H.4    Zody, M.C.5
  • 17
    • 70349574066 scopus 로고    scopus 로고
    • Application of massive parallel sequencing to whole genome SNP discovery in the porcine genome
    • in press
    • Amaral AJ, Kerstens HHD, Megens H-J, Heuven HCM, Dibbits B, et al. (2009) Application of massive parallel sequencing to whole genome SNP discovery in the porcine genome. BMC Genomics, in press.
    • (2009) BMC Genomics
    • Amaral, A.J.1    Kerstens, H.H.D.2    Megens, H.-J.3    Heuven, H.C.M.4    Dibbits, B.5
  • 19
    • 0036226603 scopus 로고    scopus 로고
    • BLAT-the BLAST-like alignment tool
    • Kent WJ (2002) BLAT-the BLAST-like alignment tool. Genome Res 12: 656-664.
    • (2002) Genome Res , vol.12 , pp. 656-664
    • Kent, W.J.1
  • 20
    • 0001899550 scopus 로고
    • TIGR Assembler: A new tool for assembling large shotgun sequencing projects
    • Sutton G, White O, Adams M, Kerlavage A (1995) TIGR Assembler: A new tool for assembling large shotgun sequencing projects. Genome Sci Technol 1(1): 9-19.
    • (1995) Genome Sci Technol , vol.1 , Issue.1 , pp. 9-19
    • Sutton, G.1    White, O.2    Adams, M.3    Kerlavage, A.4
  • 21
    • 0032849859 scopus 로고    scopus 로고
    • CAP3: A DNA Sequence Assembly Program
    • Huang X, Madan A (1999) CAP3: A DNA Sequence Assembly Program. Genome Res 9(9): 868-877.
    • (1999) Genome Res , vol.9 , Issue.9 , pp. 868-877
    • Huang, X.1    Madan, A.2
  • 22
    • 55549097836 scopus 로고    scopus 로고
    • Mapping short DNA sequencing reads and calling variants using mapping quality scores
    • Li H, Ruan J, Durbin R (2008) Mapping short DNA sequencing reads and calling variants using mapping quality scores. Genome Res 18(11): 1851-1858.
    • (2008) Genome Res , vol.18 , Issue.11 , pp. 1851-1858
    • Li, H.1    Ruan, J.2    Durbin, R.3
  • 23
    • 58149327065 scopus 로고    scopus 로고
    • SNP discovery in swine by reduced representation and high throughput pyrosequencing
    • Wiedmann RT, Smith TP, Nonneman DJ (2008) SNP discovery in swine by reduced representation and high throughput pyrosequencing. BMC Genet 9: 81.
    • (2008) BMC Genet , vol.9 , pp. 81
    • Wiedmann, R.T.1    Smith, T.P.2    Nonneman, D.J.3
  • 24
    • 33847057776 scopus 로고    scopus 로고
    • Whole genome genotyping technologies on the BeadArray platform
    • Steemers FJ, Gunderson KL (2007) Whole genome genotyping technologies on the BeadArray platform. Biotechnol J 2(1): 41-9.
    • (2007) Biotechnol , vol.J 2 , Issue.1 , pp. 41-49
    • Steemers, F.J.1    Gunderson, K.L.2
  • 25
    • 10644271562 scopus 로고    scopus 로고
    • A genetic variation map for chickenwith 2.8 million single-nucleotide polymorphisms
    • Wong GK, Liu B, Wang J, Zhang Y, Yang X, et al. (2004) A genetic variation map for chickenwith 2.8 million single-nucleotide polymorphisms. Nature 432(7018): 717-722.
    • (2004) Nature , vol.432 , Issue.7018 , pp. 717-722
    • Wong, G.K.1    Liu, B.2    Wang, J.3    Zhang, Y.4    Yang, X.5
  • 26
    • 20144362963 scopus 로고    scopus 로고
    • Worldwide phylogeography of wild boar reveals multiple centers of pig domestication
    • Larson G, Dobney K, Albarella U, Fang M, Matisoo-Smith E, et al. (2005) Worldwide phylogeography of wild boar reveals multiple centers of pig domestication. Science 307(5715): 1618-1621.
    • (2005) Science , vol.307 , Issue.5715 , pp. 1618-1621
    • Larson, G.1    Dobney, K.2    Albarella, U.3    Fang, M.4    Matisoo-Smith, E.5
  • 27
    • 0032524383 scopus 로고    scopus 로고
    • Large-scale identification, mapping, and genotyping of single-nucleotide polymorphisms in the human genome
    • Wang DG, Fan JB, Siao CJ, Berno A, Young P, et al. (1998) Large-scale identification, mapping, and genotyping of single-nucleotide polymorphisms in the human genome. Science 280: 1077-1082.
    • (1998) Science , vol.280 , pp. 1077-1082
    • Wang, D.G.1    Fan, J.B.2    Siao, C.J.3    Berno, A.4    Young, P.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.