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Volumn 66, Issue 2, 2008, Pages 121-129

Considerations for normalisation of RT-qPCR in oncology;La RT-qPCR en oncologïe: Considérations pour la normalisation

Author keywords

Cancer; Housekeeping gene; Normalisation; Quantification; RT PCR

Indexed keywords

COMPLEMENTARY DNA; MESSENGER RNA; RIBOSOME RNA; RNA;

EID: 42449114934     PISSN: 00033898     EISSN: None     Source Type: Journal    
DOI: 10.1684/abc.2008.0204     Document Type: Review
Times cited : (13)

References (43)
  • 1
    • 0033775615 scopus 로고    scopus 로고
    • Absolute quantification of mRNA using real-time reverse transcription polymerase chain reaction assays
    • Bustin SA. Absolute quantification of mRNA using real-time reverse transcription polymerase chain reaction assays. J Mol Endocrinol 2000 ; 25 : 169-93.
    • (2000) J Mol Endocrinol , vol.25 , pp. 169-193
    • Bustin, S.A.1
  • 5
    • 14044265394 scopus 로고    scopus 로고
    • Pitfalls of quantitative real-time reverse-transcription polymerase chain reaction
    • Bustin SA, Nolan T. Pitfalls of quantitative real-time reverse-transcription polymerase chain reaction. J Biomol Tech 2004 ; 15 : 155-66.
    • (2004) J Biomol Tech , vol.15 , pp. 155-166
    • Bustin, S.A.1    Nolan, T.2
  • 6
    • 28644452204 scopus 로고    scopus 로고
    • Towards standardization of RNA quality assessment using user-independent classifiers of microcapillary electrophoresis traces
    • Imbeaud S, Graudens E, Boulanger V, et al. Towards standardization of RNA quality assessment using user-independent classifiers of microcapillary electrophoresis traces. Nucleic Acids Res 2005 ; 33 : e56.
    • (2005) Nucleic Acids Res , vol.33
    • Imbeaud, S.1    Graudens, E.2    Boulanger, V.3
  • 7
    • 33645241407 scopus 로고    scopus 로고
    • The RTN : An RNA integrity number for assigning integrity values to RNA measurements
    • Schroeder A, Mueller O, Stocker S, et al. The RTN : an RNA integrity number for assigning integrity values to RNA measurements. BMC Mol Biol 2006 ; 7: 3.
    • (2006) BMC Mol Biol , vol.7 , pp. 3
    • Schroeder, A.1    Mueller, O.2    Stocker, S.3
  • 8
    • 0032894224 scopus 로고    scopus 로고
    • Quantitative RT-PCR : Pitfalls and potential
    • Freeman WM, Walker SJ, Vrana KE. Quantitative RT-PCR : pitfalls and potential. Biotechniques 1999 ; 26 : 112-5.
    • (1999) Biotechniques , vol.26 , pp. 112-115
    • Freeman, W.M.1    Walker, S.J.2    Vrana, K.E.3
  • 9
    • 33645293441 scopus 로고    scopus 로고
    • Nolan T, Hands RE, Ogunkolade W, Bustin SA. SPUD : a quantitative PCR assay for the detection of inhibitors in nucleic acid preparations. Anal Biochem 2006 ; 351 : 308-10.
    • Nolan T, Hands RE, Ogunkolade W, Bustin SA. SPUD : a quantitative PCR assay for the detection of inhibitors in nucleic acid preparations. Anal Biochem 2006 ; 351 : 308-10.
  • 10
    • 0037109753 scopus 로고    scopus 로고
    • Quantitative real-time reverse transcription polymerase chain reaction : Normalization to rRNA or single housekeeping genes is inappropriate for human tissue biopsies
    • Tricarico C, Pinzani P, Bianchi S, et al. Quantitative real-time reverse transcription polymerase chain reaction : normalization to rRNA or single housekeeping genes is inappropriate for human tissue biopsies. Anal Biochem 2002 ; 309 : 293-300.
    • (2002) Anal Biochem , vol.309 , pp. 293-300
    • Tricarico, C.1    Pinzani, P.2    Bianchi, S.3
  • 11
    • 32944464489 scopus 로고    scopus 로고
    • DNA and RNA references for qRT-PCR assays in exfoliated cervical cells
    • Steinau M, Rajeevan MS, Unger ER. DNA and RNA references for qRT-PCR assays in exfoliated cervical cells. J Mol Diagn 2006 ; 8 : 113-8.
    • (2006) J Mol Diagn , vol.8 , pp. 113-118
    • Steinau, M.1    Rajeevan, M.S.2    Unger, E.R.3
  • 12
    • 0036668567 scopus 로고    scopus 로고
    • Quantification of mRNA using real-time reverse transcription PCR (RT-PCR) : Trends and problems
    • Bustin SA. Quantification of mRNA using real-time reverse transcription PCR (RT-PCR) : trends and problems. J Mol Endocrinol 2002 ; 29 : 23-39.
    • (2002) J Mol Endocrinol , vol.29 , pp. 23-39
    • Bustin, S.A.1
  • 13
    • 0035161457 scopus 로고    scopus 로고
    • Unsuitability of using ribosomal RNA as loading control for northern blot analyses related to the imbalance between messenger and ribosomal RNA content in rat mammary tumors
    • Solanas M, Moral R, Escrich E. Unsuitability of using ribosomal RNA as loading control for northern blot analyses related to the imbalance between messenger and ribosomal RNA content in rat mammary tumors. Anal Biochem 2001 ; 288 : 99-102.
    • (2001) Anal Biochem , vol.288 , pp. 99-102
    • Solanas, M.1    Moral, R.2    Escrich, E.3
  • 14
    • 33646168728 scopus 로고    scopus 로고
    • Per cell normalization method for mRNA measurement by quantitative PCR and microarrays
    • Kanno J, Aisaki K, Igarashi K, et al. Per cell normalization method for mRNA measurement by quantitative PCR and microarrays. BMC Genomics 2006 ; 7 : 64-77.
    • (2006) BMC Genomics , vol.7 , pp. 64-77
    • Kanno, J.1    Aisaki, K.2    Igarashi, K.3
  • 15
    • 42449134117 scopus 로고    scopus 로고
    • Relative quantitation of gene expression. User bulletin no 2. ABI prism 7700 Sequence Detection System. PE Applied
    • ABI
    • ABI. Relative quantitation of gene expression. User bulletin no 2. ABI prism 7700 Sequence Detection System. PE Applied Biosystems.
    • Biosystems
  • 16
    • 0035710746 scopus 로고    scopus 로고
    • Analysis of relative gene expression data using real-time quantitative PCR and the 2(-delta delta C(T)) method
    • Livak KJ, Schmittgen TD. Analysis of relative gene expression data using real-time quantitative PCR and the 2(-delta delta C(T)) method. Methods 2001 ; 25 : 402-8.
    • (2001) Methods , vol.25 , pp. 402-408
    • Livak, K.J.1    Schmittgen, T.D.2
  • 18
    • 17344392308 scopus 로고    scopus 로고
    • A new mathematical model for relative quantification in real-time RT-PCR
    • Pfaffl MW. A new mathematical model for relative quantification in real-time RT-PCR. Nucleic Acids Res 2001 ; 29 : e45.
    • (2001) Nucleic Acids Res , vol.29
    • Pfaffl, M.W.1
  • 19
    • 0036499301 scopus 로고    scopus 로고
    • A new quantitative method of real time reverse transcription polymerase chain reaction assay based on simulation of polymerase chain reaction kinetics
    • Liu W, Saint DA. A new quantitative method of real time reverse transcription polymerase chain reaction assay based on simulation of polymerase chain reaction kinetics. Anal Biochem 2002 ; 302 : 52-9.
    • (2002) Anal Biochem , vol.302 , pp. 52-59
    • Liu, W.1    Saint, D.A.2
  • 20
    • 0242317675 scopus 로고    scopus 로고
    • Experimental validation of novel and conventional approaches to quantitative real-time PCR data analysis
    • Peirson SN, Butler JN, Foster RG. Experimental validation of novel and conventional approaches to quantitative real-time PCR data analysis. Nucleic Acids Res 2003 ; 31 : e73.
    • (2003) Nucleic Acids Res , vol.31
    • Peirson, S.N.1    Butler, J.N.2    Foster, R.G.3
  • 21
    • 23844452781 scopus 로고    scopus 로고
    • New nuclear functions of the glycolytic protein, glyceraldehyde-3-phosphate dehydrogenase, in mammalian cells
    • Sirover MA. New nuclear functions of the glycolytic protein, glyceraldehyde-3-phosphate dehydrogenase, in mammalian cells. J Cell Biochem 2005 ; 95 : 45-52.
    • (2005) J Cell Biochem , vol.95 , pp. 45-52
    • Sirover, M.A.1
  • 22
    • 0032995934 scopus 로고    scopus 로고
    • Detection of cytokeratins 19/20 and guanylyl cyclase C in peripheral blood of colorectal cancer patients
    • Bustin SA, Gyselman VG, Williams NS, Dorudi S. Detection of cytokeratins 19/20 and guanylyl cyclase C in peripheral blood of colorectal cancer patients. Br J Cancer 1999 ; 79 : 1813-20.
    • (1999) Br J Cancer , vol.79 , pp. 1813-1820
    • Bustin, S.A.1    Gyselman, V.G.2    Williams, N.S.3    Dorudi, S.4
  • 23
    • 21244499405 scopus 로고    scopus 로고
    • GAPDH as a housekeeping gene : Analysis of GAPDH mRNA expression in a panel of 72 human tissues
    • Barber RD, Harmer DW, Coleman RA, Clark BJ. GAPDH as a housekeeping gene : analysis of GAPDH mRNA expression in a panel of 72 human tissues. Physiol Genomics 2005 ; 21 : 389-95.
    • (2005) Physiol Genomics , vol.21 , pp. 389-395
    • Barber, R.D.1    Harmer, D.W.2    Coleman, R.A.3    Clark, B.J.4
  • 24
    • 33748198211 scopus 로고    scopus 로고
    • Selection of suitable reference genes for accurate normalization of gene expression profile studies in non-small cell lung cancer
    • Silvia S, Francesca C, Marco LI, Silvia N, Giorgio VS, Raffaele CA. Selection of suitable reference genes for accurate normalization of gene expression profile studies in non-small cell lung cancer. BMC Cancer 2006 ; 6 : 200-9.
    • (2006) BMC Cancer , vol.6 , pp. 200-209
    • Silvia, S.1    Francesca, C.2    Marco, L.I.3    Silvia, N.4    Giorgio, V.S.5    Raffaele, C.A.6
  • 25
    • 28544451081 scopus 로고    scopus 로고
    • Gene expression studies in prostate cancer tissue : Which reference gene should be selected for normalization ?
    • Ohl F, Jung M, Xu C, et al. Gene expression studies in prostate cancer tissue : which reference gene should be selected for normalization ? J Mol Med 2005 ; 83 : 1014-24.
    • (2005) J Mol Med , vol.83 , pp. 1014-1024
    • Ohl, F.1    Jung, M.2    Xu, C.3
  • 26
    • 0034694128 scopus 로고    scopus 로고
    • Effect of experimental treatment on housekeeping gene expression : Validation by real-time, quantitative RT-PCR
    • Schmittgen TD, Zakrajsek BA. Effect of experimental treatment on housekeeping gene expression : validation by real-time, quantitative RT-PCR. J Biochem Biophys Methods 2000 ; 46 : 69-81.
    • (2000) J Biochem Biophys Methods , vol.46 , pp. 69-81
    • Schmittgen, T.D.1    Zakrajsek, B.A.2
  • 27
    • 0037089538 scopus 로고    scopus 로고
    • Housekeeping gene variability in normal and carcinomatous colorectal and liver tissues : Applications in pharmacogenomic gene expression studies
    • Blanquicett C, Johnson MR, Heslin M, Diasio RB. Housekeeping gene variability in normal and carcinomatous colorectal and liver tissues : applications in pharmacogenomic gene expression studies. Anal Biochem 2002 ; 303 : 209-14.
    • (2002) Anal Biochem , vol.303 , pp. 209-214
    • Blanquicett, C.1    Johnson, M.R.2    Heslin, M.3    Diasio, R.B.4
  • 28
    • 0035423813 scopus 로고    scopus 로고
    • Ribosomal 18S RNA prevails over glyceraldehyde-3-phosphate dehydrogenase and beta-actin genes as internal standard for quantitative comparison of mRNA levels in invasive and noninvasive human melanoma cell subpopulations
    • Goidin D, Mamessier A, Staquet MJ, Schmitt D, Berthier-Vergnes O. Ribosomal 18S RNA prevails over glyceraldehyde-3-phosphate dehydrogenase and beta-actin genes as internal standard for quantitative comparison of mRNA levels in invasive and noninvasive human melanoma cell subpopulations. Anal Biochem 2001 ; 295 : 17-21.
    • (2001) Anal Biochem , vol.295 , pp. 17-21
    • Goidin, D.1    Mamessier, A.2    Staquet, M.J.3    Schmitt, D.4    Berthier-Vergnes, O.5
  • 29
    • 0346024131 scopus 로고    scopus 로고
    • Selection of appropriate control genes to assess expression of tumor antigens using real-time RT-PCR
    • Aerts JL, Gonzales MI, Topalian SL. Selection of appropriate control genes to assess expression of tumor antigens using real-time RT-PCR. Biotechniques 2004 ; 36 : 84-91.
    • (2004) Biotechniques , vol.36 , pp. 84-91
    • Aerts, J.L.1    Gonzales, M.I.2    Topalian, S.L.3
  • 30
    • 0037397619 scopus 로고    scopus 로고
    • Optimization of quantitative real-time RT-PCR parameters for the study of lymphoid malignancies
    • Lossos IS, Czerwinski DK, Wechser MA, Levy R. Optimization of quantitative real-time RT-PCR parameters for the study of lymphoid malignancies. Leukemia 2003 ; 17 : 789-95.
    • (2003) Leukemia , vol.17 , pp. 789-795
    • Lossos, I.S.1    Czerwinski, D.K.2    Wechser, M.A.3    Levy, R.4
  • 31
    • 0027197464 scopus 로고
    • Investigation of the expression of housekeeping genes in non-Hodgkin's lymphoma
    • Finnegan MC, Goepel JR, Hancock BW, Goyns MH. Investigation of the expression of housekeeping genes in non-Hodgkin's lymphoma. Leuk Lymphoma 1993 ; 10 : 387-93.
    • (1993) Leuk Lymphoma , vol.10 , pp. 387-393
    • Finnegan, M.C.1    Goepel, J.R.2    Hancock, B.W.3    Goyns, M.H.4
  • 33
    • 12944307847 scopus 로고    scopus 로고
    • Rubie C, Kempf K, Hans J, et al. Housekeeping gene variability in normal and cancerous colorectal, pancreatic, esophageal, gastric and hepatic tissues. Mol Cell Probes 2005 ; 19 : 101-9.
    • Rubie C, Kempf K, Hans J, et al. Housekeeping gene variability in normal and cancerous colorectal, pancreatic, esophageal, gastric and hepatic tissues. Mol Cell Probes 2005 ; 19 : 101-9.
  • 34
    • 12344270322 scopus 로고    scopus 로고
    • Normalization of gene expression measurements in tumor tissues : Comparison of 13 endogenous control genes
    • de Kok JB, Roelofs RW, Giesendorf BA, et al. Normalization of gene expression measurements in tumor tissues : comparison of 13 endogenous control genes. Lab Invest 2005 ; 85 : 154-9.
    • (2005) Lab Invest , vol.85 , pp. 154-159
    • de Kok, J.B.1    Roelofs, R.W.2    Giesendorf, B.A.3
  • 35
    • 1842483281 scopus 로고    scopus 로고
    • Determination of stable housekeeping genes, differentially regulated target genes and sample integrity : Bestkeeper-Excel-based tool using pair-wise correlations
    • Pfaffl MW, Tichopad A, Prgomet C, Neuvians TP. Determination of stable housekeeping genes, differentially regulated target genes and sample integrity : Bestkeeper-Excel-based tool using pair-wise correlations. Biotechnol Lett 2004 ; 26 : 509-15.
    • (2004) Biotechnol Lett , vol.26 , pp. 509-515
    • Pfaffl, M.W.1    Tichopad, A.2    Prgomet, C.3    Neuvians, T.P.4
  • 36
    • 0037129827 scopus 로고    scopus 로고
    • Vandesompele J, De Preter K, Pattyn F, et al. Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes. Genome Biol 2002 ; 3 : 0034.1-11.
    • Vandesompele J, De Preter K, Pattyn F, et al. Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes. Genome Biol 2002 ; 3 : 0034.1-11.
  • 37
    • 3442876969 scopus 로고    scopus 로고
    • Normalization of real-time quantitative reverse transcription-PCR data : A model-based variance estimation approach to identify genes suited for normalization, applied to bladder and colon cancer data sets
    • Andersen CL, Jensen JL, Orntoft TF. Normalization of real-time quantitative reverse transcription-PCR data : a model-based variance estimation approach to identify genes suited for normalization, applied to bladder and colon cancer data sets. Cancer Res 2004 ; 64 : 5245-50.
    • (2004) Cancer Res , vol.64 , pp. 5245-5250
    • Andersen, C.L.1    Jensen, J.L.2    Orntoft, T.F.3
  • 38
    • 0034061015 scopus 로고    scopus 로고
    • Mitochondrial ATP synthase 6 as an endogenous control in the quantitative RT-PCR analysis of clinical cancer samples
    • Gerard CJ, Andrejka LM, Macina RA. Mitochondrial ATP synthase 6 as an endogenous control in the quantitative RT-PCR analysis of clinical cancer samples. Mol Diagn 2000 ; 5 : 39-46.
    • (2000) Mol Diagn , vol.5 , pp. 39-46
    • Gerard, C.J.1    Andrejka, L.M.2    Macina, R.A.3
  • 39
    • 33645837045 scopus 로고    scopus 로고
    • Normalizing genes for quantitative RT-PCR in differentiating human intestinal epithelial cells and adenocarcinomas of the colon
    • Dydensborg AB, Herring E, Auclair J, Tremblay E, Beaulieu JF. Normalizing genes for quantitative RT-PCR in differentiating human intestinal epithelial cells and adenocarcinomas of the colon. Am J Physiol Gastrointest Liver Physiol 2006 ; 209 : 1067-74.
    • (2006) Am J Physiol Gastrointest Liver Physiol , vol.209 , pp. 1067-1074
    • Dydensborg, A.B.1    Herring, E.2    Auclair, J.3    Tremblay, E.4    Beaulieu, J.F.5
  • 40
    • 0036130355 scopus 로고    scopus 로고
    • Quantitative analysis of beta-actin, beta-2-microglobulin and porphobilinogen deaminase mRNA and their comparison as control transcripts for RT-PCR
    • Lupberger J, Kreuzer KA, Baskaynak G, Peters UR, le Coutre P, Schmidt CA. Quantitative analysis of beta-actin, beta-2-microglobulin and porphobilinogen deaminase mRNA and their comparison as control transcripts for RT-PCR. Mol Cell Probes 2002 ; 16 : 25-30.
    • (2002) Mol Cell Probes , vol.16 , pp. 25-30
    • Lupberger, J.1    Kreuzer, K.A.2    Baskaynak, G.3    Peters, U.R.4    le Coutre, P.5    Schmidt, C.A.6
  • 41
    • 29244459423 scopus 로고    scopus 로고
    • Choice of endogenous control for gene expression in nonsmall cell lung cancer
    • Liu DW, Chen ST, Liu HP. Choice of endogenous control for gene expression in nonsmall cell lung cancer. Eur Respir J 2005 ; 26 : 1002-8.
    • (2005) Eur Respir J , vol.26 , pp. 1002-1008
    • Liu, D.W.1    Chen, S.T.2    Liu, H.P.3
  • 42
    • 14644429677 scopus 로고    scopus 로고
    • Reliable transcript quantification by real-time reverse transcriptase-polymerase chain reaction in primary neuroblastoma using normalization to averaged expression levels of the control genes HPRT1 and SDHA
    • Fischer M, Skowron M, Berthold F. Reliable transcript quantification by real-time reverse transcriptase-polymerase chain reaction in primary neuroblastoma using normalization to averaged expression levels of the control genes HPRT1 and SDHA. J Mol Diagn 2005 ; 7 : 89-96.
    • (2005) J Mol Diagn , vol.7 , pp. 89-96
    • Fischer, M.1    Skowron, M.2    Berthold, F.3
  • 43
    • 16844379879 scopus 로고    scopus 로고
    • Standardization strategy for quantitative PCR in human seminoma and normal testis
    • Neuvians TP, Gashaw I, Sauer CG, et al. Standardization strategy for quantitative PCR in human seminoma and normal testis. J Biotechnol 2005; 117: 163-71.
    • (2005) J Biotechnol , vol.117 , pp. 163-171
    • Neuvians, T.P.1    Gashaw, I.2    Sauer, C.G.3


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