Estimating the annotation error rate of curated GO database sequence annotations.
Estimating the annotation error rate of curated GO database sequence annotations.
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DOI：
10.1186/1471-2105-8-170
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发表时间：
2007-05-22
影响因子：
3
通讯作者：
Baumann U
中科院分区：
文献类型：
--
作者：
Jones CE;Brown AL;Baumann U
描述序列功能的注释对于实验室研究和进行计算推断的研究人员来说非常重要。然而，很少有调查序列功能注释的数据质量。在这里，我们开发了一种新的方法来估计策展序列注释的错误率，并将其应用于基因本体论（GO）序列数据库（GOSeqLite）。该方法涉及以已知速率人为地向序列注释添加错误，并使用回归来模拟对基于BLAST匹配序列的注释精度的影响。我们估计在GOSeqLite数据库（2006年3月）中策划的GO序列注释的错误率在28%和30%之间。在不使用基于序列相似性的方法（非ISS）的情况下进行的注释的估计错误率在13%和18%之间。使用序列相似性方法（ISS）进行的注释估计错误率为49%。虽然总体错误率相当低，但谨慎对待所有国际空间站注释是明智的。使用ISS注释作为预测基础的电子注释器可能具有更高的错误预测率，因此这些系统的设计者应该考虑尽可能避免ISS注释。使用国际空间站注释进行预测的电子注释者应持怀疑态度。我们建议策展人在接受ISS注释之前彻底审查它们。总体而言，来自GO数据库的策划序列注释的用户应该放心，他们正在使用相对高质量的信息源。
Annotations that describe the function of sequences are enormously important to researchers during laboratory investigations and when making computational inferences. However, there has been little investigation into the data quality of sequence function annotations. Here we have developed a new method of estimating the error rate of curated sequence annotations, and applied this to the Gene Ontology (GO) sequence database (GOSeqLite). This method involved artificially adding errors to sequence annotations at known rates, and used regression to model the impact on the precision of annotations based on BLAST matched sequences. We estimated the error rate of curated GO sequence annotations in the GOSeqLite database (March 2006) at between 28% and 30%. Annotations made without use of sequence similarity based methods (non-ISS) had an estimated error rate of between 13% and 18%. Annotations made with the use of sequence similarity methodology (ISS) had an estimated error rate of 49%. While the overall error rate is reasonably low, it would be prudent to treat all ISS annotations with caution. Electronic annotators that use ISS annotations as the basis of predictions are likely to have higher false prediction rates, and for this reason designers of these systems should consider avoiding ISS annotations where possible. Electronic annotators that use ISS annotations to make predictions should be viewed sceptically. We recommend that curators thoroughly review ISS annotations before accepting them as valid. Overall, users of curated sequence annotations from the GO database should feel assured that they are using a comparatively high quality source of information.
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影响因子：
5.8
作者：
Artamonova, II;Frishman, G;Frishman, D
通讯作者：
Frishman, D
影响因子：
14.9
作者：
Green ML;Karp PD
通讯作者：
Karp PD
影响因子：
5.8
作者：
Khan, S;Situ, G;Schmidt, CJ
通讯作者：
Schmidt, CJ
影响因子：
3
作者：
Camon EB;Barrell DG;Dimmer EC;Lee V;Magrane M;Maslen J;Binns D;Apweiler R
通讯作者：
Apweiler R
影响因子：
3.1
作者：
Wu, CH;Huang, HZ;Barker, WC
通讯作者：
Barker, WC