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Volumn 25, Issue 21, 2009, Pages 2772-2779

The effects of probe binding affinity differences on gene expression measurements and how to deal with them

Author keywords

[No Author keywords available]

Indexed keywords

ACCURACY; ARTICLE; BINDING AFFINITY; CHIMPANZEE; COMPUTER PROGRAM; CONTROLLED STUDY; GENE EXPRESSION PROFILING; GENE SEQUENCE; GENETIC VARIABILITY; HUMAN; MATHEMATICAL ANALYSIS; MICROARRAY ANALYSIS; MOLECULAR PROBE; NONHUMAN; PRIORITY JOURNAL; SEQUENCE ANALYSIS; SPECIES DIFFERENCE; STRAIN DIFFERENCE;

EID: 70350689944     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btp492     Document Type: Article
Times cited : (7)

References (26)
  • 1
    • 38649137338 scopus 로고    scopus 로고
    • Sequence polymorphisms cause many false cis eqtls
    • Alberts,R. et al. (2007) Sequence polymorphisms cause many false cis eqtls. PLoS ONE, 2, e622.
    • (2007) PLoS ONE , vol.2
    • Alberts, R.1
  • 2
    • 0035546072 scopus 로고    scopus 로고
    • Genome-wide variation in the human and fruitfly: A comparison
    • Aquadro,C. et al. (2001) Genome-wide variation in the human and fruitfly: A comparison. Curr. Opin. Genet. Dev., 11, 627-634.
    • (2001) Curr. Opin. Genet. Dev , vol.11 , pp. 627-634
    • Aquadro, C.1
  • 3
    • 23244431990 scopus 로고    scopus 로고
    • Specific and non specific hybridization of oligonucleotide probes on microarrays
    • Binder,H. and Preibisch,S. (2005) Specific and non specific hybridization of oligonucleotide probes on microarrays. Biophys. J. 89, 337-352.
    • (2005) Biophys. J , vol.89 , pp. 337-352
    • Binder, H.1    Preibisch, S.2
  • 4
    • 0037177625 scopus 로고    scopus 로고
    • Genetic dissection of transcriptional regulation in budding yeast
    • Brem,R.B. et al. (2002) Genetic dissection of transcriptional regulation in budding yeast. Science, 296, 752-755.
    • (2002) Science , vol.296 , pp. 752-755
    • Brem, R.B.1
  • 5
    • 38549174065 scopus 로고    scopus 로고
    • The mouse genome database (MGD): Mouse biology and model systems
    • Bult,C. et al. (2008) The mouse genome database (MGD): Mouse biology and model systems. Nucleic Acids Res., 36, D724-D728.
    • (2008) Nucleic Acids Res , vol.36
    • Bult, C.1
  • 6
    • 0242268390 scopus 로고    scopus 로고
    • Elevated gene expression levels distinguish human from non-human primate brains
    • Càceres,M. et al. (2003) Elevated gene expression levels distinguish human from non-human primate brains. Proc. Natl Acad. Sci. USA, 100, 13030-13035.
    • (2003) Proc. Natl Acad. Sci. USA , vol.100 , pp. 13030-13035
    • Càceres, M.1
  • 7
    • 0037066542 scopus 로고    scopus 로고
    • Intra- and interspecific variation in primate gene expression patterns
    • Enard,W. et al. (2002) Intra- and interspecific variation in primate gene expression patterns. Science, 296, 340-343.
    • (2002) Science , vol.296 , pp. 340-343
    • Enard, W.1
  • 8
    • 34548295740 scopus 로고    scopus 로고
    • A sequence-based variation map of 8.27 million SNPs in inbred mouse strains
    • Frazer,K.A. et al. (2007) A sequence-based variation map of 8.27 million SNPs in inbred mouse strains. Nature, 448, 1050-1053.
    • (2007) Nature , vol.448 , pp. 1050-1053
    • Frazer, K.A.1
  • 9
    • 19844365733 scopus 로고    scopus 로고
    • Multi-species microarrays reveal the effect of sequence divergence on gene expression profiles
    • Gilad,Y. et al. (2005) Multi-species microarrays reveal the effect of sequence divergence on gene expression profiles. Genome Res., 15, 674-680.
    • (2005) Genome Res , vol.15 , pp. 674-680
    • Gilad, Y.1
  • 10
    • 34447543724 scopus 로고    scopus 로고
    • Detecting genetic variation in microarray expression data
    • Greenhall,J.A. et al. (2007) Detecting genetic variation in microarray expression data. Genome Res., 17, 1228-1235.
    • (2007) Genome Res , vol.17 , pp. 1228-1235
    • Greenhall, J.A.1
  • 11
    • 33644783812 scopus 로고    scopus 로고
    • Regional and cellular gene expression changes in human Huntington's disease brain
    • Hodges,A. et al. (2006) Regional and cellular gene expression changes in human Huntington's disease brain. Hum. Mol. Genet., 15, 965-977.
    • (2006) Hum. Mol. Genet , vol.15 , pp. 965-977
    • Hodges, A.1
  • 12
    • 28444445972 scopus 로고    scopus 로고
    • Glyoxalase 1 and glutathione reductase 1 regulate anxiety in mice
    • Hovatta,I. et al. (2005) Glyoxalase 1 and glutathione reductase 1 regulate anxiety in mice. Nature, 438, 662-666.
    • (2005) Nature , vol.438 , pp. 662-666
    • Hovatta, I.1
  • 13
    • 0242318322 scopus 로고    scopus 로고
    • Mixed-model reanalysis of primate data suggests tissue and species biases in oligonucleotide-based gene expression profiles
    • Hsieh,W.-P. et al. (2003) Mixed-model reanalysis of primate data suggests tissue and species biases in oligonucleotide-based gene expression profiles. Genetics, 165, 747-757.
    • (2003) Genetics , vol.165 , pp. 747-757
    • Hsieh, W.-P.1
  • 14
    • 4444287699 scopus 로고    scopus 로고
    • Regional patterns of gene expression in human and chimpanzee brains
    • Khaitovich,P. et al. (2004) Regional patterns of gene expression in human and chimpanzee brains. Genome Res., 14, 1462-1473.
    • (2004) Genome Res , vol.14 , pp. 1462-1473
    • Khaitovich, P.1
  • 15
    • 33645503260 scopus 로고    scopus 로고
    • Microarray analysis reveals differential gene expression in hybrid sunflower species
    • Lai,Z. et al. (2006) Microarray analysis reveals differential gene expression in hybrid sunflower species. Mol. Ecol., 15, 1213-1227.
    • (2006) Mol. Ecol , vol.15 , pp. 1213-1227
    • Lai, Z.1
  • 16
    • 0035793042 scopus 로고    scopus 로고
    • Model-based analysis of oligonucleotide arrays: Expression index computation and outlier detection
    • Li,C. and Wong,W.H. (2001) Model-based analysis of oligonucleotide arrays: Expression index computation and outlier detection. Proc. Natl Acad. Sci. USA, 98, 31-36.
    • (2001) Proc. Natl Acad. Sci. USA , vol.98 , pp. 31-36
    • Li, C.1    Wong, W.H.2
  • 17
    • 62649089109 scopus 로고    scopus 로고
    • Population genomics of domestic and wild yeasts
    • Liti,G. et al. (2009) Population genomics of domestic and wild yeasts. Nature, 458, 337-341.
    • (2009) Nature , vol.458 , pp. 337-341
    • Liti, G.1
  • 18
    • 46049096333 scopus 로고    scopus 로고
    • Impact of point-mutations on the hybridization affinity of surface-bound DNA/DNA and RNA/DNA oligonucleotide-duplexes: Comparison of single base mismatches and base bulges
    • Naiser,T. et al. (2008) Impact of point-mutations on the hybridization affinity of surface-bound DNA/DNA and RNA/DNA oligonucleotide-duplexes: Comparison of single base mismatches and base bulges. BMC Biotechnol., 8, 48.
    • (2008) BMC Biotechnol , vol.8 , pp. 48
    • Naiser, T.1
  • 19
    • 3042591076 scopus 로고    scopus 로고
    • Common pattern of evolution of gene expression level and protein sequence in Drosophila
    • Nuzhdin,S.V. et al. (2004) Common pattern of evolution of gene expression level and protein sequence in Drosophila. Mol. Biol. Evol. 21, 1308-1317.
    • (2004) Mol. Biol. Evol , vol.21 , pp. 1308-1317
    • Nuzhdin, S.V.1
  • 20
    • 14644432534 scopus 로고    scopus 로고
    • Simultaneous genotyping, gene-expression measurement, and detection of allele-specific expression with oligonucleotide arrays
    • Ronald,J. et al. (2005) Simultaneous genotyping, gene-expression measurement, and detection of allele-specific expression with oligonucleotide arrays. Genome Res., 15, 284-291.
    • (2005) Genome Res , vol.15 , pp. 284-291
    • Ronald, J.1
  • 21
    • 58349107641 scopus 로고    scopus 로고
    • Use of hidden correlations in short oligonucleotide array data are insufficient for accurate quantification of nucleic acid targets in complex target mixtures
    • Rule,R.A. et al. (2009) Use of hidden correlations in short oligonucleotide array data are insufficient for accurate quantification of nucleic acid targets in complex target mixtures. J. Microbiol. Methods, 76, 188-195.
    • (2009) J. Microbiol. Methods , vol.76 , pp. 188-195
    • Rule, R.A.1
  • 22
    • 33749130645 scopus 로고    scopus 로고
    • Gene expression analysis of bipolar disorder reveals downregulation of the ubiquitin cycle and alterations in synaptic genes
    • Ryan,M.M. et al. (2006) Gene expression analysis of bipolar disorder reveals downregulation of the ubiquitin cycle and alterations in synaptic genes. Mol. Psychiatry, 11, 965-978.
    • (2006) Mol. Psychiatry , vol.11 , pp. 965-978
    • Ryan, M.M.1
  • 23
    • 32544437127 scopus 로고    scopus 로고
    • Genetic analysis of variation in gene expression in Arabidopsis thaliana
    • Vuylsteke,M. et al. (2005) Genetic analysis of variation in gene expression in Arabidopsis thaliana. Genetics, 171, 1267-1275.
    • (2005) Genetics , vol.171 , pp. 1267-1275
    • Vuylsteke, M.1
  • 24
    • 33644778724 scopus 로고    scopus 로고
    • Long versus short oligonucleotide microarrays for the study of gene expression in nonhuman primates
    • Walker,S.J. et al. (2006) Long versus short oligonucleotide microarrays for the study of gene expression in nonhuman primates. J. Neurosci. Methods, 152, 179-189.
    • (2006) J. Neurosci. Methods , vol.152 , pp. 179-189
    • Walker, S.J.1
  • 25
    • 0032555671 scopus 로고    scopus 로고
    • Direct allelic variation scanning of the yeast genome
    • Winzeler,E.A. et al. (1998) Direct allelic variation scanning of the yeast genome. Science, 281, 1194-1197.
    • (1998) Science , vol.281 , pp. 1194-1197
    • Winzeler, E.A.1
  • 26
    • 0038729666 scopus 로고    scopus 로고
    • A model of molecular interactions on short oligonucleotide microarrays
    • Zhang,L. et al. (2003) A model of molecular interactions on short oligonucleotide microarrays. Nat. Biotechnol., 21, 818-821.
    • (2003) Nat. Biotechnol , vol.21 , pp. 818-821
    • Zhang, L.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.