The consequences of sample pooling in proteomics: An empirical study
The consequences of sample pooling in proteomics: An empirical study
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DOI：
10.1002/elps.200900210
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发表时间：
2009-09-01
期刊：
影响因子：
2.9
通讯作者：
Skibinski, David O. F.
中科院分区：
文献类型：
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作者：
Diz, Angel P.;Truebano, Manuela;Skibinski, David O. F.
当分析许多个体时，蛋白质组学实验中的样本汇集可能有助于克服资源限制。测量到的生物学变异应该减少，从而增加检测治疗差异的能力。在微阵列工作中一直提倡合并，但对其在蛋白质组学中的潜力却很少进行测试。在这项研究中，我们研究了合并方法成功与否可能取决于的三个问题，并提供了证据：（i）池中的蛋白质表达与构成大多数蛋白质的池中的个体的平均表达相匹配，尽管对于某些蛋白质来说，池表达是不同的； (ii) 正如理论上所预测的那样，池之间的生物学方差比个体之间的生物学方差有所减少，但这种减少并不像预期的那么大。这样做的一个实际结果是可以降低功率； (iii) 当样品合并时，单个样品中可检测到的蛋白质通常但并不总是可见。我们的结论是，蛋白质组学工作中的样本汇集是一种有效且具有潜在价值的程序，但在实验设计中应考虑这些问题。
Pooling of samples in proteomics experiments might help overcome resource constraints when many individuals are analysed. The measured biological variation should be reduced giving increased power to detect treatment differences. Pooling has been advocated in microarray work but there are few tests of its potential in proteomics. In this study, we examine three issues on which the success of the pooling approach might hinge and provide evidence that: (i) the protein expression in a pool matches the mean expression of the individuals making up the pool for the majority of proteins, although for some proteins the pool expression is different; (ii) the biological variance between pools is reduced compared with that between individuals, as predicted in theory, but this reduction is not as large as expected. A practical consequence of this is that power could be reduced; (iii) proteins detectable in individual samples are usually but not always visible when samples are pooled. We conclude that pooling of samples in proteomics work is a valid and potentially valuable procedure but consideration should be given to these issues in experimental design.