Palo Alto Research Center, 3333 Coyote Hill Road, Palo Alto, California 94304, USA.
J Proteome Res. 2011 Apr 1;10(4):2123-7. doi: 10.1021/pr101143m. Epub 2011 Feb 21.
Everett et al. recently reported on a statistical bias that arises in the target-decoy approach to false discovery rate estimation in two-pass proteomics search strategies as exemplified by X!Tandem. This bias can cause serious underestimation of the false discovery rate. We argue here that the "unbiased" solution proposed by Everett et al., however, is also biased and under certain circumstances can also result in a serious underestimate of the FDR, especially at the protein level.
埃弗雷特等人最近报道了一种在双通蛋白质组学搜索策略（如 X!Tandem 中）的靶标-诱饵方法中出现的统计偏差，这种偏差会导致错误发现率的严重低估。我们在这里认为，埃弗雷特等人提出的“无偏”解决方案也是有偏差的，并且在某些情况下也会导致 FDR 的严重低估，尤其是在蛋白质水平上。
