The utility of MAS5 expression summary and detection call algorithms
The utility of MAS5 expression summary and detection call algorithms
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DOI：
10.1186/1471-2105-8-273
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发表时间：
2007-07-30
影响因子：
3
通讯作者：
Miller, Crispin J.
中科院分区：
文献类型：
--
作者：
Pepper, Stuart D.;Saunders, Emma K.;Miller, Crispin J.
背景：单独使用 MAS5.0 算法生成表达摘要时，由于低强度下的夸大变异而导致的高假阳性率一直备受批评：结果：在此，我们用重复的细胞系数据表明，当与检测调用一起使用时，MAS5 可以同时具有选择性和灵敏性。我们发现了一组差异表达的转录本，MAS5 发现这些转录本在变化，而 RMA 和 GCRMA 发现这些转录本没有变化。随后的实时 PCR 分析证实了这些变化。此外，在通常用于评估表达摘要算法的拉丁方数据集上，过滤后的 MAS5.0 的性能接近其同类算法：结论：当与检测调用一起使用时，MAS5 是一种用于识别差异表达基因的灵敏且有选择性的算法。
Background: Used alone, the MAS5.0 algorithm for generating expression summaries has been criticized for high False Positive rates resulting from exaggerated variance at low intensities.Results: Here we show, with replicated cell line data, that, when used alongside detection calls, MAS5 can be both selective and sensitive. A set of differentially expressed transcripts were identified that were found to be changing by MAS5, but unchanging by RMA and GCRMA. Subsequent analysis by real time PCR confirmed these changes. In addition, with the Latin square datasets often used to assess expression summary algorithms, filtered MAS5.0 was found to have performance approaching that of its peers.Conclusion: When used alongside detection calls, MAS5 is a sensitive and selective algorithm for identifying differentially expressed genes.