A novel normalization approach for MicroRNA quantitative PCR

Progress in Biochemistry and Biophysics

Volumn 38, Issue 5, 2011, Pages 473-481

  Jin, You Fang ^a   Xu, Gen Ming ^b   Li, Yan ^a   Meng, Li ^a   Jiang, Yong Hou ^a   Guo, Jiang Feng ^a   Ding, Xian Feng ^a  

^a ZHEJIANG SCI TECH UNIVERSITY   (China)

^b LC Science Co Ltd   (China)

Author keywords

MiRNA; Per cell normalization; Quantitative PCR; Spike RNA

Indexed keywords

MUS;

EID: 79960256412     PISSN: 10003282     EISSN: None     Source Type: Journal    
DOI: 10.3724/SP.J.1206.2010.00397     Document Type: Article

References (26)

1. Lim LP, Lau N C, Weinstein E G, et al. The microRNAs of Caenorhabditis elegans. Genes Dev, 2003, 17(8): 991-1008 (Pubitemid 36459452)
2. Ambros V. MicroRNA pathways in flies and worms: growth, death, fat, stress, and timing. Cell, 2003, 113(6): 673-676 (Pubitemid 36724931)
3. Reinhart B J, Slack F J, Basson M, et al. The 21-nucleotide let-7 RNA regulates developmental timing in Caenorhabditis elegans. Nature, 2000, 403(6772):901-906 (Pubitemid 30130993)
4. Brennecke J, Hipfner D R, Stark A, et al. bantam encodes a developmentally regulated microRNA that controls cell proliferation and regulates the proapoptotic gene hid in Drosophila. Cell, 2003, 113(1): 25-36 (Pubitemid 36411957)
5. Baehrecke E H. miRNAs: micro managers of programmed cell death. Curr Biol, 2003, 13(12): R473-R475 (Pubitemid 36726026)
6. Michael M Z, SM O C, van Holst Pellekaan N G, et al. Reduced accumulation of specific microRNAs in colorectal neoplasia. Mol Cancer Res, 2003, 1(12): 882-891 (Pubitemid 37288707)
7. Hou Z H, Zhang J, Tian Z G Prog Biochem Biophys, 2008, 35(10): 1131-1136
8. Pradervand S, Weber J, Thomas J, et al. Impact of normalization on miRNA microarray expression profiling. Rna, 2009, 15(3): 493-501
9. Mestdagh P, Van Vlierberghe P, De Weer A, et al. A novel and universal method for microRNA RT-qPCR data normalization. Genome Biol, 2009, 10(6): R64-R73
10. Sharbati-Tehrani S, Kutz-Lohroff B, Bergbauer R, et al. miR-Q: a novel quantitative RT-PCR approach for the expression profiling of small RNA molecules such as miRNAs in a complex sample. BMC Mol Biol, 2008, 9: 34-46
11. Peltier H J, Latham G J. Normalization of microRNA expression levels in quantitative RT-PCR assays: identification of suitable reference RNA targets in normal and cancerous human solid tissues. Rna, 2008, 14(5): 844-852 (Pubitemid 351574906)
12. Livak K J, Schmittgen T D. Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. Methods, 2001, 25(4): 402-408 (Pubitemid 34164012)
13. Lee P D, Sladek R, Greenwood C M, et al. Control genes and variability: absence of ubiquitous reference transcripts in diverse mammalian expression studies. Genome Res, 2002, 12(2): 292-297 (Pubitemid 34162995)
14. Tang R, Dodd A, Lai D, et al. Validation of zebrafish (Danio rerio) reference genes for quantitative real-time RT-PCR normalization. Acta Biochim Biophys Sin (Shanghai), 2007, 39(5): 384-390 (Pubitemid 46792125)
15. van de Peppel J, Kemmeren P, van Bakel H, et al. Monitoring global messenger RNA changes in externally controlled microarray experiments. EMBO Rep, 2003, 4(4): 387-393 (Pubitemid 36622004)
16. Holstege F C, Jennings E G, Wyrick J J, et al. Dissecting the regulatory circuitry of a eukaryotic genome. Cell, 1998, 95 (5): 717-728 (Pubitemid 28544132)
17. Hill A A, Brown E L, Whitley M Z, et al. Evaluation of normalization procedures for oligonucleotide array data based on spiked cRNA controls. Genome Biol, 2001, 2(12): RESEARCH0055
18. Yang Y H, Dudoit S, Luu P, et al. Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation. Nucleic Acids Res, 2002, 30(4): e15
19. Talaat A M, Howard S T, Hale W t, et al. Genomic DNA standards for gene expression profiling in Mycobacterium tuberculosis. Nucleic Acids Res, 2002, 30(20): e104
20. Sterrenburg E, Turk R, Boer J M, et al. A common reference for cDNA microarray hybridizations. Nucleic Acids Res, 2002, 30(21): e116
21. Dudley A M, Aach J, Steffen M A, et al. Measuring absolute expression with microarrays with a calibrated reference sample and an extended signal intensity range. Proc Natl Acad Sci USA, 2002, 99(11): 7554-7559 (Pubitemid 34568729)
22. Hekstra D, Taussig A R, Magnasco M, et al. Absolute mRNA concentrations from sequence-specific calibration of oligonucleotide arrays. Nucleic Acids Res, 2003, 31(7): 1962-1968 (Pubitemid 36432703)
23. 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
24. Bolstad B M, Irizarry R A, Astrand M, et al. A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics, 2003, 19(2): 185-193 (Pubitemid 36181903)
25. Skillman L C, Toovey A F, Williams A J, et al. Development and validation of a real-time PCR method to quantify rumen protozoa and examination of variability between entodinium populations in sheep offered a hay-based diet. Appl Environ Microbiol, 2006, 72(1):200-206
26. Chen C, Ridzon D A, Broomer A J, et al. Real-time quantification of microRNAs by stem-loop RT-PCR. Nucleic Acids Res, 2005, 33(20): e179