Assessing the Reliability of Amplified RNA Used in Microarrays
作者： Edward D Bearden , Pippa M Simpson , Charlotte A Peterson , Marjorie L Beggs
DOI: 10.2165/00822942-200605020-00001
关键词:
摘要: A certain minimal amount of RNA from biological samples is necessary to perform a microarray experiment with suitable replication. In some cases, the available insufficient, necessitating amplification prior target synthesis. However, there uncertainty about reliability targets that have been generated amplified RNA, because nonlinearity and preferential amplification. This current work develops straightforward strategy assess data obtained RNA. The tabular method we developed, which utilises Down-Up-Missing-Below (DUMB) classification scheme, shows microarrays are reliable within constraints. There was an increase in false negatives need for increased filtering. Furthermore, this analysis generic can be broadly applied evaluate all data.
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Wai Kwan Lau, Sung-Kay Chiu, Jing-Tyan Ma, Chi-Meng Tzeng, None, Linear amplification of catalyzed reporter deposition technology on nylon membrane microarray BioTechniques. ,vol. 33, pp. 564- 570 ,(2002) , 10.2144/02333ST07
Jo Vandesompele, Katleen De Preter, Filip Pattyn, Bruce Poppe, Nadine Van Roy, Anne De Paepe, Frank Speleman, Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes Genome Biology. ,vol. 3, pp. 1- 12 ,(2002) , 10.1186/GB-2002-3-7-RESEARCH0034
Richard J. Cook, Kappa and Its Dependence on Marginal Rates Wiley StatsRef: Statistics Reference Online. ,(2014) , 10.1002/9781118445112.STAT05243
Nicholas F Marko, Bryan Frank, John Quackenbush, Norman H Lee, A robust method for the amplification of RNA in the sense orientation. BMC Genomics. ,vol. 6, pp. 27- 27 ,(2005) , 10.1186/1471-2164-6-27
Alvan R. Feinstein, Domenic V. Cicchetti, High agreement but low kappa: I. The problems of two paradoxes. Journal of Clinical Epidemiology. ,vol. 43, pp. 543- 549 ,(1990) , 10.1016/0895-4356(90)90158-L
Dmitry Ivanov, Galina Dvoriantchikova, Anna Pestova, Lubov Nathanson, Valery I. Shestopalov, Microarray analysis of fiber cell maturation in the lens FEBS Letters. ,vol. 579, pp. 1213- 1219 ,(2005) , 10.1016/J.FEBSLET.2005.01.016
Yao Li, Tao Li, Sanzhen Liu, Minyan Qiu, Zhiyong Han, Zhenling Jiang, Rongyu Li, Kang Ying, Yi Xie, Yumin Mao, Systematic comparison of the fidelity of aRNA, mRNA and T-RNA on gene expression profiling using cDNA microarray. Journal of Biotechnology. ,vol. 107, pp. 19- 28 ,(2004) , 10.1016/J.JBIOTEC.2003.09.008
Liang Li, Joe Roden, Bruce E. Shapiro, Barbara J. Wold, Smita Bhatia, Stephen J. Forman, Ravi Bhatia, Reproducibility, Fidelity, and Discriminant Validity of mRNA Amplification for Microarray Analysis from Primary Hematopoietic Cells The Journal of Molecular Diagnostics. ,vol. 7, pp. 48- 56 ,(2005) , 10.1016/S1525-1578(10)60008-6
Marc Kenzelmann, Ralf Klären, Manfred Hergenhahn, Mahnaz Bonrouhi, Hermann-Josef Gröne, Wolfgang Schmid, Günther Schütz, High-accuracy amplification of nanogram total RNA amounts for gene profiling. Genomics. ,vol. 83, pp. 550- 558 ,(2004) , 10.1016/J.YGENO.2003.09.026
John S. Uebersax, Diversity of decision-making models and the measurement of interrater agreement. Psychological Bulletin. ,vol. 101, pp. 140- 146 ,(1987) , 10.1037/0033-2909.101.1.140