메뉴 건너뛰기




Volumn 23, Issue 1, 2013, Pages 152-158

Haplotype-based profiling of subtle allelic imbalance with SNP arrays

Author keywords

[No Author keywords available]

Indexed keywords

ALLELIC IMBALANCE; ARTICLE; CANCER CELL CULTURE; CONTROLLED STUDY; HAPLOTYPE; HETEROZYGOSITY LOSS; HIDDEN MARKOV MODEL; HUMAN; HUMAN CELL; MICROARRAY ANALYSIS; PRIORITY JOURNAL; SENSITIVITY ANALYSIS; SINGLE NUCLEOTIDE POLYMORPHISM; TUMOR GENE;

EID: 84871944090     PISSN: 10889051     EISSN: 15495469     Source Type: Journal    
DOI: 10.1101/gr.141374.112     Document Type: Article
Times cited : (37)

References (25)
  • 1
    • 84975742565 scopus 로고    scopus 로고
    • A map of human genome variation from population-scale sequencing
    • The 1000 Genomes Project Consortium. 2010. A map of human genome variation from population-scale sequencing. Nature 467: 1061-1073.
    • (2010) Nature , vol.467 , pp. 1061-1073
  • 3
    • 41549089945 scopus 로고    scopus 로고
    • SNP arrays in heterogeneous tissue: Highly accurate collection of both germline and somatic genetic information from unpaired single tumor samples
    • Assié G, LaFramboise T, Platzer P, Bertherat J, Stratakis C, Eng C. 2008. SNP arrays in heterogeneous tissue: Highly accurate collection of both germline and somatic genetic information from unpaired single tumor samples. Am J Hum Genet 82: 903-915.
    • (2008) Am J Hum Genet , vol.82 , pp. 903-915
    • Assié, G.1    LaFramboise, T.2    Platzer, P.3    Bertherat, J.4    Stratakis, C.5    Eng, C.6
  • 5
    • 79551522261 scopus 로고    scopus 로고
    • Estimation of parent specific DNA copy number in tumors using high-density genotyping arrays
    • doi: 10.1371/journal.pcbi.1001060
    • Chen H, Xing H, Zhang N. 2011. Estimation of parent specific DNA copy number in tumors using high-density genotyping arrays. PLoS Comput Biol 7: e1001060. doi: 10.1371/journal.pcbi.1001060.
    • (2011) PLoS Comput Biol , vol.7
    • Chen, H.1    Xing, H.2    Zhang, N.3
  • 6
    • 0025269067 scopus 로고
    • Inference of haplotypes from PCR-amplified samples of diploid populations
    • Clark AG. 1990. Inference of haplotypes from PCR-amplified samples of diploid populations. Mol Biol Evol 7: 111-122.
    • (1990) Mol Biol Evol , vol.7 , pp. 111-122
    • Clark, A.G.1
  • 7
    • 77949511314 scopus 로고    scopus 로고
    • Power to detect selective allelic amplification in genome-wide scans of tumor data
    • Dewal N, Freedman M, LaFramboise T, Pe'er I. 2010. Power to detect selective allelic amplification in genome-wide scans of tumor data. Bioinformatics 26: 518-528.
    • (2010) Bioinformatics , vol.26 , pp. 518-528
    • Dewal, N.1    Freedman, M.2    LaFramboise, T.3    Pe'Er, I.4
  • 8
    • 84863011867 scopus 로고    scopus 로고
    • Calling amplified haplotypes in next generation tumor sequence data
    • Dewal N, Hu Y, FreedmanM, LaFramboise T, Pe'er I. 2012. Calling amplified haplotypes in next generation tumor sequence data. Genome Res 22: 362-374.
    • (2012) Genome Res , vol.22 , pp. 362-374
    • Dewal, N.1    Hu, Y.2    Freedman, M.3    LaFramboise, T.4    Pe'Er, I.5
  • 9
    • 0029130796 scopus 로고
    • Maximum-likelihood estimation of molecular haplotype frequencies in a diploid population
    • Excoffier L, Slatkin M. 1995. Maximum-likelihood estimation of molecular haplotype frequencies in a diploid population. Mol Biol Evol 12: 921-927.
    • (1995) Mol Biol Evol , vol.12 , pp. 921-927
    • Excoffier, L.1    Slatkin, M.2
  • 10
    • 50849101381 scopus 로고    scopus 로고
    • Resolving individuals contributing trace amounts of DNA to highly complex mixtures using high-density SNP genotyping microarrays
    • doi: 10.1371/journal.pgen.1000167
    • Homer N, Szelinger S, Redman M, Duggan D, TembeW, Muehling J, Pearson JV, Stephan DA, Nelson SF, Craig DW. 2008. Resolving individuals contributing trace amounts of DNA to highly complex mixtures using high-density SNP genotyping microarrays. PLoS Genet 4: e1000167. doi: 10.1371/journal.pgen.1000167.
    • (2008) PLoS Genet , vol.4
    • Homer, N.1    Szelinger, S.2    Redman, M.3    Duggan, D.4    Tembe, W.5    Muehling, J.6    Pearson, J.V.7    Stephan, D.A.8    Nelson, S.F.9    Craig, D.W.10
  • 11
    • 34447577485 scopus 로고    scopus 로고
    • The International HapMap Project
    • International HapMap Consortium
    • International HapMap Consortium. 2005. The International HapMap Project. Nature 437: 1299-1320.
    • (2005) Nature , vol.437 , pp. 1299-1320
  • 12
    • 0015043748 scopus 로고
    • Mutation and cancer: Statistical study of retinoblastoma
    • Knudson AG. 1971. Mutation and cancer: Statistical study of retinoblastoma. Proc Natl Acad Sci 68: 820-823.
    • (1971) Proc Natl Acad Sci , vol.68 , pp. 820-823
    • Knudson, A.G.1
  • 14
    • 79960268207 scopus 로고    scopus 로고
    • GPHMM: An integrated hidden Markov model for identification of copy number alteration and loss of heterozygosity in complex tumor samples using whole genome SNP arrays
    • Li A, Liu Z, Lezon-Geyda K, Sarkar S, Lannin D, Schulz V, Krop I, Winer E, Harris L, Tuck D. 2011. GPHMM: An integrated hidden Markov model for identification of copy number alteration and loss of heterozygosity in complex tumor samples using whole genome SNP arrays. Nucleic Acids Res 39: 4928-4941.
    • (2011) Nucleic Acids Res , vol.39 , pp. 4928-4941
    • Li, A.1    Liu, Z.2    Lezon-Geyda, K.3    Sarkar, S.4    Lannin, D.5    Schulz, V.6    Krop, I.7    Winer, E.8    Harris, L.9    Tuck, D.10
  • 16
    • 76249097734 scopus 로고    scopus 로고
    • Genome alteration print (GAP): A tool to visualize and mine complex cancer genomic profiles obtained by SNP arrays
    • doi: 10.1186/gb-2009-10-11-r128
    • Popova T, Manié E, Stoppa-Lyonnet D, Rigaill G, Barillot E, Stern M. 2009. Genome alteration print (GAP): A tool to visualize and mine complex cancer genomic profiles obtained by SNP arrays. Genome Biol 10: R128. doi: 10.1186/gb-2009-10-11-r128.
    • (2009) Genome Biol , vol.10
    • Popova, T.1    Manié, E.2    Stoppa-Lyonnet, D.3    Rigaill, G.4    Barillot, E.5    Stern, M.6
  • 17
    • 0024610919 scopus 로고
    • A tutorial on HMM and selected applications in speech recognition
    • Rabiner LR. 1989. A tutorial on HMM and selected applications in speech recognition. Proc IEEE 77: 257-286.
    • (1989) Proc IEEE , vol.77 , pp. 257-286
    • Rabiner, L.R.1
  • 18
    • 33644974019 scopus 로고    scopus 로고
    • A fast and flexible statistical model for largescale population genotype data: Applications to inferring missing genotypes and haplotypic phase
    • Scheet P, Stephens M. 2006. A fast and flexible statistical model for largescale population genotype data: Applications to inferring missing genotypes and haplotypic phase. Am J Hum Genet 78: 629-644.
    • (2006) Am J Hum Genet , vol.78 , pp. 629-644
    • Scheet, P.1    Stephens, M.2
  • 21
    • 0035071957 scopus 로고    scopus 로고
    • A new statistical method for haplotype reconstruction from population data
    • DOI 10.1086/319501
    • Stephens M, Smith NJ, Donnelly P. 2001. A new statistical method for haplotype reconstruction from population data. Am J Hum Genet 68: 978-989. (Pubitemid 32289743)
    • (2001) American Journal of Human Genetics , vol.68 , Issue.4 , pp. 978-989
    • Stephens, M.1    Smith, N.J.2    Donnelly, P.3
  • 23
    • 0024268520 scopus 로고
    • A cladistic analysis of phenotype associations with haplotypes inferred from restriction endonuclease mapping. II. The analysis of natural populations
    • Templeton AR, Sing CF, Kessling A, Humphries S. 1988. A cladistic analysis of phenotype associations with haplotypes inferred from restriction endonuclease mapping. II. The analysis of natural populations. Genetics 120: 1145-1154. (Pubitemid 19008851)
    • (1988) Genetics , vol.120 , Issue.4 , pp. 1145-1154
    • Templeton, A.R.1    Sing, C.F.2    Kessling, A.3    Humphries, S.4
  • 24
    • 35948984173 scopus 로고    scopus 로고
    • PennCNV: An integrated hidden Markov model designed for high-resolution copy number variation detection in whole-genome SNP genotyping data
    • DOI 10.1101/gr.6861907
    • Wang K, Li M, Hadley D, Liu R, Glessner J, Grant S, Hakonarson H, Bucan M. 2007. PennCNV: An integrated hidden Markov model designed for high-resolution copy number variation detection in whole-genome SNP genotyping data. Genome Res 17: 1665-1674. (Pubitemid 350074862)
    • (2007) Genome Research , vol.17 , Issue.11 , pp. 1665-1674
    • Wang, K.1    Li, M.2    Hadley, D.3    Liu, R.4    Glessner, J.5    Grant, S.F.A.6    Hakonarson, H.7    Bucan, M.8
  • 25
    • 77956690576 scopus 로고    scopus 로고
    • A statistical approach for detecting genomic aberrations in heterogeneous tumor samples from single nucleotide polymorphism genotyping data
    • doi: 10.1186/gb-2010-11-9-r92
    • Yau C, Mouradov D, Jorissen R, Colella S, Mirza G, Steers G, Harris A, Ragoussis J, Sieber O, Holmes C, et al. 2010. A statistical approach for detecting genomic aberrations in heterogeneous tumor samples from single nucleotide polymorphism genotyping data. Genome Biol 11: R92. doi: 10.1186/gb-2010-11-9-r92.
    • (2010) Genome Biol , vol.11
    • Yau, C.1    Mouradov, D.2    Jorissen, R.3    Colella, S.4    Mirza, G.5    Steers, G.6    Harris, A.7    Ragoussis, J.8    Sieber, O.9    Holmes, C.10


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.