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Volumn 40, Issue 6, 2012, Pages

SCOREM: Statistical consolidation of redundant expression measures

Author keywords

[No Author keywords available]

Indexed keywords

RNA;

EID: 84859339171     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkr1270     Document Type: Article
Times cited : (3)

References (35)
  • 1
    • 33846689706 scopus 로고    scopus 로고
    • Using GOstats to test gene lists for GO term association
    • DOI 10.1093/bioinformatics/btl567
    • Falcon, S. and Gentleman, R. (2007) Using GOstats to test gene lists for GO term association. Bioinformatics, 23, 257-258 (Pubitemid 46189622)
    • (2007) Bioinformatics , vol.23 , Issue.2 , pp. 257-258
    • Falcon, S.1    Gentleman, R.2
  • 2
    • 77950395903 scopus 로고    scopus 로고
    • Probe set filtering increases correlation between Affymetrix GeneChip and qRT-PCR expression measurements
    • Mieczkowski, J., Tyburczy, M.E., Dabrowski, M. and Pokarowski, P. (2010) Probe set filtering increases correlation between Affymetrix GeneChip and qRT-PCR expression measurements. BMC Bioinformatics, 11, 104
    • (2010) BMC Bioinformatics , vol.11 , pp. 104
    • Mieczkowski, J.1    Tyburczy, M.E.2    Dabrowski, M.3    Pokarowski, P.4
  • 3
    • 68249092641 scopus 로고    scopus 로고
    • Calculation of reliable transcript levels of annotated genes on the basis of multiple probe-sets in Affymetrix microarrays
    • Jaksik, R., Polañska, J., Herok, R. and Rzeszowska-Wolny, J. (2009) Calculation of reliable transcript levels of annotated genes on the basis of multiple probe-sets in Affymetrix microarrays. Acta Biochim Pol., 56, 271-277
    • (2009) Acta Biochim Pol. , vol.56 , pp. 271-277
    • Jaksik, R.1    Polañska, J.2    Herok, R.3    Rzeszowska-Wolny, J.4
  • 4
    • 44449099654 scopus 로고    scopus 로고
    • A statistical framework for consolidating "sibling" probe sets for Affymetrix GeneChip data
    • Li, H., Zhu, D. and Cook, M. (2008) A statistical framework for consolidating "sibling"probe sets for Affymetrix GeneChip data. BMC Genomics, 9, 188
    • (2008) BMC Genomics , vol.9 , pp. 188
    • Li, H.1    Zhu, D.2    Cook, M.3
  • 7
    • 26444454986 scopus 로고    scopus 로고
    • A sequence-based identification of the genes detected by probesets on the Affymetrix U133 plus 2.0 array
    • Harbig, J., Sprinkle, R. and Enkemann, S.A. (2005) A sequence-based identification of the genes detected by probesets on the Affymetrix U133 plus 2.0 array. Nucleic Acids Res., 33, e31
    • (2005) Nucleic Acids Res. , vol.33
    • Harbig, J.1    Sprinkle, R.2    Enkemann, S.A.3
  • 8
    • 59349094837 scopus 로고    scopus 로고
    • Consistency analysis of redundant probe sets on Affymetrix three-prime expression arrays and applications to differential mRNA processing
    • Cui, X. and Loraine, A.E. (2009) Consistency analysis of redundant probe sets on Affymetrix three-prime expression arrays and applications to differential mRNA processing. PLoS One, 4, e4229
    • (2009) PLoS One , vol.4
    • Cui, X.1    Loraine, A.E.2
  • 9
    • 34247349497 scopus 로고    scopus 로고
    • Transcript-based redefinition of grouped oligonucleotide probe sets using AceView: High-resolution annotation for microarrays
    • Lu, J., Lee, J.C., Salit, M.L. and Cam, M.C. (2007) Transcript-based redefinition of grouped oligonucleotide probe sets using AceView: High-resolution annotation for microarrays. BMC Bioinformatics, 8, 108
    • (2007) BMC Bioinformatics , vol.8 , pp. 108
    • Lu, J.1    Lee, J.C.2    Salit, M.L.3    Cam, M.C.4
  • 10
    • 34447275203 scopus 로고    scopus 로고
    • Transcript-level annotation of Affymetrix probesets improves the interpretation of gene expression data
    • Yu, H., Wang, F., Tu, K., Xie, L., Li, Y.Y. and Li, Y.X. (2007) Transcript-level annotation of Affymetrix probesets improves the interpretation of gene expression data. BMC Bioinformatics, 8, 194
    • (2007) BMC Bioinformatics , vol.8 , pp. 194
    • Yu, H.1    Wang, F.2    Tu, K.3    Xie, L.4    Li, Y.Y.5    Li, Y.X.6
  • 13
    • 34347248822 scopus 로고    scopus 로고
    • Estrogen receptors α and β mediate distinct pathways of vascular gene expression, including genes involved in mitochondrial electron transport and generation of reactive oxygen species
    • DOI 10.1210/me.2006-0497
    • O'Lone, R., Knorr, K., Jaffe, I.Z., Schaffer, M.E., Martini, P.G., Karas, R.H., Bienkowska, J., Mendelsohn, M.E. and Hansen, U. (2007) Estrogen receptors alpha and beta mediate distinct pathways of vascular gene expression, including genes involved in mitochondrial electron transport and generation of reactive oxygen species. Mol. Endocrinol., 21, 1281-1296 (Pubitemid 46991958)
    • (2007) Molecular Endocrinology , vol.21 , Issue.6 , pp. 1281-1296
    • O'Lone, R.1    Knorr, K.2    Jaffe, I.Z.3    Schaffer, M.E.4    Martini, P.G.V.5    Karas, R.H.6    Bienkowska, J.7    Mendelsohn, M.E.8    Hansen, U.9
  • 14
    • 33748743807 scopus 로고    scopus 로고
    • Impact of estrogen receptor β on gene networks regulated by estrogen receptor α in breast cancer cells
    • DOI 10.1210/en.2006-0563
    • Chang, E.C., Frasor, J., Komm, B. and Katzenellenbogen, B.S. (2006) Impact of estrogen receptor beta on gene networks regulated by estrogen receptor alpha in breast cancer cells. Endocrinology, 147, 4831-4842 (Pubitemid 44402189)
    • (2006) Endocrinology , vol.147 , Issue.10 , pp. 4831-4842
    • Chang, E.C.1    Frasor, J.2    Komm, B.3    Katzenellenbogen, B.S.4
  • 15
    • 33746908103 scopus 로고    scopus 로고
    • Gene expression preferentially regulated by tamoxifen in breast cancer cells and correlations with clinical outcome
    • DOI 10.1158/0008-5472.CAN-05-4269
    • Frasor, J., Chang, E.C., Komm, B., Lin, C.Y., Vega, V.B., Liu, E.T., Miller, L.D., Smeds, J., Bergh, J. and Katzenellenbogen, B.S. (2006) Gene expression preferentially regulated by tamoxifen in breast cancer cells and correlations with clinical outcome. Cancer Res., 66, 7334-7340 (Pubitemid 44197716)
    • (2006) Cancer Research , vol.66 , Issue.14 , pp. 7334-7340
    • Frasor, J.1    Chang, E.C.2    Komm, B.3    Lin, C.-Y.4    Vega, V.B.5    Liu, E.T.6    Miller, L.D.7    Smeds, J.8    Bergh, J.9    Katzenellenbogen, B.S.10
  • 16
    • 43049090857 scopus 로고    scopus 로고
    • Estrogen receptors α and β as determinants of gene expression: Influence of ligand, dose, and chromatin binding
    • DOI 10.1210/me.2007-0356
    • Chang, E.C., Charn, T.H., Park, S.H., Helferich, W.G., Komm, B., Katzenellenbogen, J.A. and Katzenellenbogen, B.S. (2008) Estrogen receptors alpha and beta as determinants of gene expression: influence of ligand, dose, and chromatin binding. Mol. Endocrinol., 22, 1032-1043 (Pubitemid 351629605)
    • (2008) Molecular Endocrinology , vol.22 , Issue.5 , pp. 1032-1043
    • Chang, E.C.1    Charn, T.H.2    Park, S.-H.3    Helferich, W.G.4    Komm, B.5    Katzenellenbogen, J.A.6    Katzenellenbogen, B.S.7
  • 18
    • 77953611520 scopus 로고    scopus 로고
    • A microarray analysis of sexual dimorphism of adipose tissues in high-fat-diet-induced obese mice
    • Grove, K.L., Fried, S.K., Greenberg, A.S., Xiao, X.Q. and Clegg, D.J. (2010) A microarray analysis of sexual dimorphism of adipose tissues in high-fat-diet-induced obese mice. Int. J. Obes., 34, 989-1000
    • (2010) Int. J. Obes. , vol.34 , pp. 989-1000
    • Grove, K.L.1    Fried, S.K.2    Greenberg, A.S.3    Xiao, X.Q.4    Clegg, D.J.5
  • 21
    • 4544341015 scopus 로고    scopus 로고
    • Linear models and empirical Bayes methods for assessing differential expression in microarray experiments
    • Smyth, G.K. (2004) Linear models and empirical Bayes methods for assessing differential expression in microarray experiments. Stat. Appl. Genet. Mol. Biol., 3, 3
    • (2004) Stat. Appl. Genet. Mol. Biol. , vol.3 , pp. 3
    • Smyth, G.K.1
  • 22
    • 23944458138 scopus 로고    scopus 로고
    • A general framework for weighted gene co-expression network analysis
    • Zhang, B. and Horvath, S. (2005) A general framework for weighted gene co-expression network analysis. Stat. Appl. Genet. Mol. Biol., 4, 17
    • (2005) Stat. Appl. Genet. Mol. Biol. , vol.4 , pp. 17
    • Zhang, B.1    Horvath, S.2
  • 23
    • 0001677717 scopus 로고
    • Controlling the false discovery rate: A practical and powerful approach to multiple testing
    • Benjamini, Y. and Hochberg, Y. (1995) Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Stat. Soc. B, 57, 289-300
    • (1995) J. R. Stat. Soc. B , vol.57 , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2
  • 28
    • 33846057724 scopus 로고    scopus 로고
    • NCBI reference sequences (RefSeq): A curated non-redundant sequence database of genomes, transcripts and proteins
    • DOI 10.1093/nar/gkl842
    • Pruitt, K.D., Tatusova, T. and Maglott, D.R. (2007) NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res., 35, D61-D65 (Pubitemid 46056171)
    • (2007) Nucleic Acids Research , vol.35 , Issue.SUPPL. 1
    • Pruitt, K.D.1    Tatusova, T.2    Maglott, D.R.3
  • 30
    • 0036226603 scopus 로고    scopus 로고
    • BLAT - The BLAST-like alignment tool
    • Kent, W.J. (2002) BLAT-the BLAST-like alignment tool. Genome Res., 12, 656-664
    • (2002) Genome Res. , vol.12 , pp. 656-664
    • Kent, W.J.1
  • 32
    • 33847679625 scopus 로고    scopus 로고
    • Improved precision and accuracy for microarrays using updated probe set definitions
    • Sandberg, R. and Larsson, O. (2007) Improved precision and accuracy for microarrays using updated probe set definitions. BMC Bioinformatics, 8, 48
    • (2007) BMC Bioinformatics , vol.8 , pp. 48
    • Sandberg, R.1    Larsson, O.2
  • 34
    • 33750879597 scopus 로고    scopus 로고
    • Lack of correct data format and comparability limits future integrative microarray research [2]
    • DOI 10.1038/nbt1106-1322, PII NBT11061322
    • Larsson, O. and Sandberg, R. (2006) Lack of correct data format and comparability limits future integrative microarray research. Nat. Biotech., 24, 1322-1323 (Pubitemid 44722083)
    • (2006) Nature Biotechnology , vol.24 , Issue.11 , pp. 1322-1323
    • Larsson, O.1    Sandberg, R.2
  • 35
    • 70349739736 scopus 로고    scopus 로고
    • The Integrated Genome Browser: Free software for distribution and exploration of genome-scale datasets
    • Nicol, J.W., Helt, G.A., Blanchard, S.G., Raja, A. and Loraine, A.E. (2009) The Integrated Genome Browser: free software for distribution and exploration of genome-scale datasets. Bioinformatics, 25, 2730-2731.
    • (2009) Bioinformatics , vol.25 , pp. 2730-2731
    • Nicol, J.W.1    Helt, G.A.2    Blanchard, S.G.3    Raja, A.4    Loraine, A.E.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.