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Volumn 3, Issue 12, 2008, Pages

A snapshot of CNVs in the pig genome

Author keywords

[No Author keywords available]

Indexed keywords

MESSENGER RNA;

EID: 58049191440     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0003916     Document Type: Article
Times cited : (104)

References (63)
  • 1
    • 0032580152 scopus 로고    scopus 로고
    • A molecular timescale for vertebrate evolution
    • Kumar S, Hedges SB (1998) A molecular timescale for vertebrate evolution. Nature 392: 917-920.
    • (1998) Nature , vol.392 , pp. 917-920
    • Kumar, S.1    Hedges, S.B.2
  • 2
    • 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 SJ, Gilbert JG, 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.J.4    Gilbert, J.G.5
  • 4
    • 0028922295 scopus 로고
    • Visualization of the conservation of synteny between humans and pigs by heterologous chromosomal painting
    • Rettenberger G, Klett C, Zecher U, Kunz J, Vogel W, et al. (1995) Visualization of the conservation of synteny between humans and pigs by heterologous chromosomal painting. Genomics 26: 372-378.
    • (1995) Genomics , vol.26 , pp. 372-378
    • Rettenberger, G.1    Klett, C.2    Zecher, U.3    Kunz, J.4    Vogel, W.5
  • 6
    • 0037039771 scopus 로고    scopus 로고
    • Production of α-1,3-galactosyltransferase knockout pigs by nuclear transfer cloning
    • Lai L, Kolber-Simonds D, Park K-W, Cheong H-T, Greenstein JL, et al. (2002) Production of α-1,3-galactosyltransferase knockout pigs by nuclear transfer cloning. Science 295: 1089-1092.
    • (2002) Science , vol.295 , pp. 1089-1092
    • Lai, L.1    Kolber-Simonds, D.2    Park, K.-W.3    Cheong, H.-T.4    Greenstein, J.L.5
  • 7
    • 28644446730 scopus 로고    scopus 로고
    • Acute rejection is associated with antibodies to non-Gal antigens in baboons using Gal-knockout pig kidneys
    • Chen G, Qian H, Starzl T, Sun H, Garcia B, et al. (2005) Acute rejection is associated with antibodies to non-Gal antigens in baboons using Gal-knockout pig kidneys. Nat Med 11: 1295-1298.
    • (2005) Nat Med , vol.11 , pp. 1295-1298
    • Chen, G.1    Qian, H.2    Starzl, T.3    Sun, H.4    Garcia, B.5
  • 8
    • 35348995029 scopus 로고    scopus 로고
    • Molecular characterization and temporal expression profiling of presenilins in the developing porcine brain
    • Madsen LB, Thomsen B, Larsen K, Bendixen C, Holm LE, et al. (2007) Molecular characterization and temporal expression profiling of presenilins in the developing porcine brain. BMC Neuroscience 8: 72.
    • (2007) BMC Neuroscience , vol.8 , pp. 72
    • Madsen, L.B.1    Thomsen, B.2    Larsen, K.3    Bendixen, C.4    Holm, L.E.5
  • 10
    • 3242808027 scopus 로고    scopus 로고
    • Large-scale copy number polymorphism in the human genome
    • Sebat J, Lakshmi B, Troge J, Alexander J, Young J, et al. (2004) Large-scale copy number polymorphism in the human genome. Science 305: 525-528.
    • (2004) Science , vol.305 , pp. 525-528
    • Sebat, J.1    Lakshmi, B.2    Troge, J.3    Alexander, J.4    Young, J.5
  • 14
    • 29444450702 scopus 로고    scopus 로고
    • Common deletions and SNPs are in linkage disequilibrium in the human genome
    • Hinds DA, Kloek AP, Jen M, Chen X, Frazer KA (2006) Common deletions and SNPs are in linkage disequilibrium in the human genome. Nat Genet 38: 82-85.
    • (2006) Nat Genet , vol.38 , pp. 82-85
    • Hinds, D.A.1    Kloek, A.P.2    Jen, M.3    Chen, X.4    Frazer, K.A.5
  • 16
    • 33751329250 scopus 로고    scopus 로고
    • Global variation in copy number in the human genome
    • Redon R, Ishikawa S, Fitch KR, Feuk L, Perry GH, et al. (2006) Global variation in copy number in the human genome. Nature 444: 444-454.
    • (2006) Nature , vol.444 , pp. 444-454
    • Redon, R.1    Ishikawa, S.2    Fitch, K.R.3    Feuk, L.4    Perry, G.H.5
  • 17
    • 33846006596 scopus 로고    scopus 로고
    • A comprehensive analysis of common copy-number variations in the human genome
    • Wong KK, deLeeuw RJ, Dosanjh NS, Kimm LR, Cheng Z, et al. (2007) A comprehensive analysis of common copy-number variations in the human genome. Am J Hum Genet 80: 91-104.
    • (2007) Am J Hum Genet , vol.80 , pp. 91-104
    • Wong, K.K.1    deLeeuw, R.J.2    Dosanjh, N.S.3    Kimm, L.R.4    Cheng, Z.5
  • 18
    • 25844500437 scopus 로고    scopus 로고
    • A genome-wide survey of structural variation between human and chimpanzee
    • Newman TL, Tuzun E, Morrison VA, Hayden KE, Ventura M, et al. (2005) A genome-wide survey of structural variation between human and chimpanzee. Genome Res 15: 1344-1356.
    • (2005) Genome Res , vol.15 , pp. 1344-1356
    • Newman, T.L.1    Tuzun, E.2    Morrison, V.A.3    Hayden, K.E.4    Ventura, M.5
  • 20
    • 4444242992 scopus 로고    scopus 로고
    • Genomic segmental polymorphisms in inbred mouse strains
    • Li J, Jiang T, Mao JH, Balmain A, Peterson L, et al. (2004) Genomic segmental polymorphisms in inbred mouse strains. Nat Genet 36: 952-954.
    • (2004) Nat Genet , vol.36 , pp. 952-954
    • Li, J.1    Jiang, T.2    Mao, J.H.3    Balmain, A.4    Peterson, L.5
  • 21
    • 33846614650 scopus 로고    scopus 로고
    • A high-resolution map of segmental DNA copy number variation in the mouse genome
    • Graubert TA, Cahan P, Edwin D, Selzer RR, Richmond TA, et al. (2007) A high-resolution map of segmental DNA copy number variation in the mouse genome. PLoS Genet 3: e3.
    • (2007) PLoS Genet , vol.3
    • Graubert, T.A.1    Cahan, P.2    Edwin, D.3    Selzer, R.R.4    Richmond, T.A.5
  • 22
    • 38849101781 scopus 로고    scopus 로고
    • Significant gene content variation characterizes the genomes of inbred mouse strains
    • Cutler G, Marshall LA, Chin N, Baribault H, Kassner PD (2007) Significant gene content variation characterizes the genomes of inbred mouse strains. Genome Res 12: 1743-54.
    • (2007) Genome Res , vol.12 , pp. 1743-1754
    • Cutler, G.1    Marshall, L.A.2    Chin, N.3    Baribault, H.4    Kassner, P.D.5
  • 23
    • 38049055222 scopus 로고    scopus 로고
    • Genomic copy number and expression variation within the C57BL/6J inbred mouse strain
    • Watkins-Chow DE, Pavan WJ (2008) Genomic copy number and expression variation within the C57BL/6J inbred mouse strain. Genome Res 1: 60-6.
    • (2008) Genome Res , vol.1 , pp. 60-66
    • Watkins-Chow, D.E.1    Pavan, W.J.2
  • 24
    • 33847749371 scopus 로고    scopus 로고
    • Efficient high-resolution deletion discovery in Caenorhabditis elegans by array comparative genomic hybridization
    • Maydan JS, Flibotte S, Edgley ML, Lau J, Selzer RR, et al. (2007) Efficient high-resolution deletion discovery in Caenorhabditis elegans by array comparative genomic hybridization. Genome Res 17: 337-347.
    • (2007) Genome Res , vol.17 , pp. 337-347
    • Maydan, J.S.1    Flibotte, S.2    Edgley, M.L.3    Lau, J.4    Selzer, R.R.5
  • 25
    • 38049150491 scopus 로고    scopus 로고
    • A portrait of copy-number polymorphism in Drosophila melanogaster
    • Dopman EB, Hartl DL (2007) A portrait of copy-number polymorphism in Drosophila melanogaster. Proc Natl Acad Sci U S A 104: 19920-19925.
    • (2007) Proc Natl Acad Sci U S A , vol.104 , pp. 19920-19925
    • Dopman, E.B.1    Hartl, D.L.2
  • 28
    • 33846978695 scopus 로고    scopus 로고
    • Relative Impact of Nucleotide and Copy Number Variation on Gene Expression Phenotypes
    • Stranger BE, Forrest MS, Dunning M, Ingle CE, Beazley C, et al. (2007) Relative Impact of Nucleotide and Copy Number Variation on Gene Expression Phenotypes. Science 315(5813): 848.
    • (2007) Science , vol.315 , Issue.5813 , pp. 848
    • Stranger, B.E.1    Forrest, M.S.2    Dunning, M.3    Ingle, C.E.4    Beazley, C.5
  • 29
    • 34547664096 scopus 로고    scopus 로고
    • Genomic disorders: Molecular mechanisms for rearrangements and conveyed phenotypes
    • Lupski JR, Stankiewicz P (2005) Genomic disorders: molecular mechanisms for rearrangements and conveyed phenotypes. PLoS Genet 1: 627-633.
    • (2005) PLoS Genet , vol.1 , pp. 627-633
    • Lupski, J.R.1    Stankiewicz, P.2
  • 30
    • 34347349069 scopus 로고    scopus 로고
    • Genomic rearrangements and sporadic disease
    • Lupski JR (2007) Genomic rearrangements and sporadic disease. Nat Genet 39: S43-S47.
    • (2007) Nat Genet , vol.39
    • Lupski, J.R.1
  • 33
    • 33746513094 scopus 로고    scopus 로고
    • Linkage disequilibrium and heritability of CNPs within duplicated regions of the human genome
    • Locke DP, Sharp AJ, McCarroll SA, McGrath SD, Newman TL, et al. (2006) Linkage disequilibrium and heritability of CNPs within duplicated regions of the human genome. Am J Hum Genet 79: 275-290.
    • (2006) Am J Hum Genet , vol.79 , pp. 275-290
    • Locke, D.P.1    Sharp, A.J.2    McCarroll, S.A.3    McGrath, S.D.4    Newman, T.L.5
  • 34
    • 0034831138 scopus 로고    scopus 로고
    • Segmental duplications: Organization and impact within the current human genome project assembly
    • Bailey JA, Yavor AM, Massa HF, Trask BJ, Eichler E (2001) Segmental duplications: organization and impact within the current human genome project assembly. Genome Res 11: 1005-17.
    • (2001) Genome Res , vol.11 , pp. 1005-1017
    • Bailey, J.A.1    Yavor, A.M.2    Massa, H.F.3    Trask, B.J.4    Eichler, E.5
  • 35
    • 0037047628 scopus 로고    scopus 로고
    • Recent segmental duplications in the human genome
    • Bailey J, Gu Z, Clark R, Reinert K, Samonte R, et al. (2002) Recent segmental duplications in the human genome. Science 297: 1003-1007.
    • (2002) Science , vol.297 , pp. 1003-1007
    • Bailey, J.1    Gu, Z.2    Clark, R.3    Reinert, K.4    Samonte, R.5
  • 36
    • 24344459066 scopus 로고    scopus 로고
    • A genomewide comparison of recent chimpanzee and human segmental duplications
    • Cheng Z, Ventura M, She X, Khaitovich P, Graves T, et al. (2005) A genomewide comparison of recent chimpanzee and human segmental duplications. Nature 437: 88-93.
    • (2005) Nature , vol.437 , pp. 88-93
    • Cheng, Z.1    Ventura, M.2    She, X.3    Khaitovich, P.4    Graves, T.5
  • 37
    • 2442680252 scopus 로고    scopus 로고
    • Analysis of segmental duplications and genome assembly in the mouse
    • Bailey J, Church D, Ventura M, Rocchi M, Eichler E (2004) Analysis of segmental duplications and genome assembly in the mouse. Genome Res 14: 789-801.
    • (2004) Genome Res , vol.14 , pp. 789-801
    • Bailey, J.1    Church, D.2    Ventura, M.3    Rocchi, M.4    Eichler, E.5
  • 38
    • 1842526843 scopus 로고    scopus 로고
    • Implications of human genome architecture for rearrangement-based disorders: The genomic basis of disease
    • Shaw CJ, Lupski JR (2004) Implications of human genome architecture for rearrangement-based disorders: the genomic basis of disease. Hum Mol Genet 13: R57-R64.
    • (2004) Hum Mol Genet , vol.13
    • Shaw, C.J.1    Lupski, J.R.2
  • 41
    • 0034764307 scopus 로고    scopus 로고
    • SSAHA: A fast search method for large DNA databases
    • Ning Z, Cox AJ, Mullikin JC (2001) SSAHA: a fast search method for large DNA databases. Genome Res 11: 1725-9.
    • (2001) Genome Res , vol.11 , pp. 1725-1729
    • Ning, Z.1    Cox, A.J.2    Mullikin, J.C.3
  • 42
    • 58049200713 scopus 로고    scopus 로고
    • Sambrook J, Fritsch EF, Maniatis T (1989) Molecular cloning. A laboratory manual, 2nd ed. New York: Cold Spring Harbor Laboratory Press. pp 11.46.
    • Sambrook J, Fritsch EF, Maniatis T (1989) Molecular cloning. A laboratory manual, 2nd ed. New York: Cold Spring Harbor Laboratory Press. pp 11.46.
  • 43
    • 0032846163 scopus 로고    scopus 로고
    • Maskless fabrication of light-directed oligonucleotide microarrays using a digital micromirror array
    • Singh-Gasson S, Green RD, Yue YY, Nelson C, Blattner F, et al. (1999) Maskless fabrication of light-directed oligonucleotide microarrays using a digital micromirror array. Nat Biotech 17: 974-978.
    • (1999) Nat Biotech , vol.17 , pp. 974-978
    • Singh-Gasson, S.1    Green, R.D.2    Yue, Y.Y.3    Nelson, C.4    Blattner, F.5
  • 44
    • 0036852098 scopus 로고    scopus 로고
    • Gene expression analysis using oligonucleotide arrays produced by maskless photolithography
    • Nuwaysir EF, Huang W, Albert TJ, Singh J, Nuwaysir K, et al. (2002) Gene expression analysis using oligonucleotide arrays produced by maskless photolithography. Genome Res 12: 1749-1755.
    • (2002) Genome Res , vol.12 , pp. 1749-1755
    • Nuwaysir, E.F.1    Huang, W.2    Albert, T.J.3    Singh, J.4    Nuwaysir, K.5
  • 45
    • 25844494223 scopus 로고    scopus 로고
    • Analysis of chromosome breakpoints in neuroblastoma at sub-kilobase resolution using fine-tiling oligonucleotide array CGH
    • Selzer RR, Richmond TA, Pofahl NJ, Green RD, Eis PS, et al. (2005) Analysis of chromosome breakpoints in neuroblastoma at sub-kilobase resolution using fine-tiling oligonucleotide array CGH. Genes Chrom Cancer 44: 305-319.
    • (2005) Genes Chrom Cancer , vol.44 , pp. 305-319
    • Selzer, R.R.1    Richmond, T.A.2    Pofahl, N.J.3    Green, R.D.4    Eis, P.S.5
  • 46
    • 0030305457 scopus 로고    scopus 로고
    • A language for data analysis and graphics
    • Ihaka R, Gentleman RC (1996) A language for data analysis and graphics. J Comp Graph Statist 5: 299-314.
    • (1996) J Comp Graph Statist , vol.5 , pp. 299-314
    • Ihaka, R.1    Gentleman, R.C.2
  • 47
    • 28744458859 scopus 로고    scopus 로고
    • Bioconductor: Open software development for computational biology and bioinformatics
    • Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, et al. (2004) Bioconductor: open software development for computational biology and bioinformatics. Genome Biol 5: R80.
    • (2004) Genome Biol , vol.5
    • Gentleman, R.C.1    Carey, V.J.2    Bates, D.M.3    Bolstad, B.4    Dettling, M.5
  • 48
    • 0242333835 scopus 로고    scopus 로고
    • Normalization of cDNA microarray data
    • Smyth GK, Speed TP (2003) Normalization of cDNA microarray data. Methods 31: 265-273.
    • (2003) Methods , vol.31 , pp. 265-273
    • Smyth, G.K.1    Speed, T.P.2
  • 50
    • 3543105225 scopus 로고    scopus 로고
    • Circular binary segmentation for the analysis of array-based DNA copy number data
    • Olshen AB, Venkatraman ES, Lucito R, Wigler M (2004) Circular binary segmentation for the analysis of array-based DNA copy number data. Biostatistics 5: 557-572.
    • (2004) Biostatistics , vol.5 , pp. 557-572
    • Olshen, A.B.1    Venkatraman, E.S.2    Lucito, R.3    Wigler, M.4
  • 51
    • 12344259648 scopus 로고    scopus 로고
    • Analysis of array CGHdata: From signal ratio to gain and loss of DNA regions
    • Hupe P, Stransky N, Thiery JP, Radvanyi F, Barillot E (2004) Analysis of array CGHdata: from signal ratio to gain and loss of DNA regions. Bioinformatics 20: 3413-3422.
    • (2004) Bioinformatics , vol.20 , pp. 3413-3422
    • Hupe, P.1    Stransky, N.2    Thiery, J.P.3    Radvanyi, F.4    Barillot, E.5
  • 53
    • 27544483495 scopus 로고    scopus 로고
    • Comparative analysis of algorithms for identifying amplifications and deletions in array CGH data
    • Lai WR, Johnson MD, Kucherlapati R, Park PJ (2005) Comparative analysis of algorithms for identifying amplifications and deletions in array CGH data. Bioinformatics 21: 3763-3770.
    • (2005) Bioinformatics , vol.21 , pp. 3763-3770
    • Lai, W.R.1    Johnson, M.D.2    Kucherlapati, R.3    Park, P.J.4
  • 54
    • 27944455289 scopus 로고    scopus 로고
    • A comparison study: Applying segmentation to array CGH data for downstream analyses
    • Willenbrock H, Fridlyand J (2005) A comparison study: applying segmentation to array CGH data for downstream analyses. Bioinformatics 21(22): 4084-91.
    • (2005) Bioinformatics , vol.21 , Issue.22 , pp. 4084-4091
    • Willenbrock, H.1    Fridlyand, J.2
  • 55
    • 17444395237 scopus 로고    scopus 로고
    • Hardware and software systems for accelerating common bioinformatics sequence analysis algorithms
    • Luethy R, Hoover C (2004) Hardware and software systems for accelerating common bioinformatics sequence analysis algorithms. Biosilico 2(1): 12-17.
    • (2004) Biosilico , vol.2 , Issue.1 , pp. 12-17
    • Luethy, R.1    Hoover, C.2
  • 58
    • 34547831828 scopus 로고    scopus 로고
    • Porcine transcriptome analysis based on 97 non-normalized cDNA libraries and assembly of 1,021,891 expressed sequence tags
    • Gorodkin J, Cirera S, Hedegaard J, Gilchrist MJ, Panitz F, et al. (2007) Porcine transcriptome analysis based on 97 non-normalized cDNA libraries and assembly of 1,021,891 expressed sequence tags. Genome Biol 8: R45.
    • (2007) Genome Biol , vol.8
    • Gorodkin, J.1    Cirera, S.2    Hedegaard, J.3    Gilchrist, M.J.4    Panitz, F.5
  • 59
    • 33846064113 scopus 로고    scopus 로고
    • NCBI GEO: Mining tens of millions of expression profiles-database and tools update
    • Barrett T, Troup DB, Wilhite SE, Ledoux P, Rudnev D, et al. (2007) NCBI GEO: mining tens of millions of expression profiles-database and tools update. Nucleic Acids Res 35: D760-D765.
    • (2007) Nucleic Acids Res , vol.35
    • Barrett, T.1    Troup, D.B.2    Wilhite, S.E.3    Ledoux, P.4    Rudnev, D.5
  • 60
    • 40849109768 scopus 로고    scopus 로고
    • Phenotypically concordant and discordant monozygotic twins display different DNA copy-number-variation profiles
    • Bruder C, Piotrowski A, Gijsbers A, Andersson R, Erickson S, et al. (2008) Phenotypically concordant and discordant monozygotic twins display different DNA copy-number-variation profiles. Am J Hum Genet 82(3): 763-71.
    • (2008) Am J Hum Genet , vol.82 , Issue.3 , pp. 763-771
    • Bruder, C.1    Piotrowski, A.2    Gijsbers, A.3    Andersson, R.4    Erickson, S.5
  • 61
    • 51549095601 scopus 로고    scopus 로고
    • Somatic mosaicism for copy number variation in differentiated human tissues
    • Piotrowski A, Bruder C, Andersson R, de Ståhl TD, Menzel U, et al. (2008) Somatic mosaicism for copy number variation in differentiated human tissues. Human Mutat 29(9): 1118-1124.
    • (2008) Human Mutat , vol.29 , Issue.9 , pp. 1118-1124
    • Piotrowski, A.1    Bruder, C.2    Andersson, R.3    de Ståhl, T.D.4    Menzel, U.5
  • 62
    • 47749108692 scopus 로고    scopus 로고
    • Strong position-dependent effects of sequence mismatches on signal ratios measured using long oligonucleotide microarrays
    • Rennie C, Noyes HA, Kemp SJ, Hulme H, Brass H, et al. (2008) Strong position-dependent effects of sequence mismatches on signal ratios measured using long oligonucleotide microarrays. BMC Genomics 9: 317.
    • (2008) BMC Genomics , vol.9 , pp. 317
    • Rennie, C.1    Noyes, H.A.2    Kemp, S.J.3    Hulme, H.4    Brass, H.5
  • 63
    • 46249105777 scopus 로고    scopus 로고
    • Natural Selection Shapes Genome-Wide Patterns of Copy-Number Polymorphism in Drosophila melanogaster
    • Emerson JJ, Cardoso-Moreira M, Borevitz JO, Long M, et al. (2008) Natural Selection Shapes Genome-Wide Patterns of Copy-Number Polymorphism in Drosophila melanogaster. Science 320(5883): 1629-31.
    • (2008) Science , vol.320 , Issue.5883 , pp. 1629-1631
    • Emerson, J.J.1    Cardoso-Moreira, M.2    Borevitz, J.O.3    Long, M.4


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