基因本体论：陷阱、偏见与补救
Gene Ontology: Pitfalls, Biases, Remedies
摘要：
基因本体论（GO）是一个强大的资源，但有几个考虑因素对理解数据和正确解释数据至关重要。GO非常简单，可以在不深入了解其结构或如何开发的情况下使用，这既是优点也是缺点。在本章中，我们讨论了一些常见的本体和注释的误解。更好地理解GO中的陷阱和偏见应该有助于用户充分利用这个非常丰富的资源。我们还回顾了一些误解和误导性的假设，通常对GO，包括数据不完整性的影响，注释限定符的重要性，以及传递性或缺乏与不同的本体关系。我们还讨论了几个偏见，可以混淆聚合分析，如基因富集分析。对于每一个陷阱和偏见，我们都提出了补救措施和最佳实践。
英文摘要：
The Gene Ontology (GO) is a formidable resource but there are several considerations about it that are essential to understand the data and interpret it correctly. The GO is sufficiently simple that it can be used without deep understanding of its structure or how it is developed, which is both a strength and a weakness. In this chapter, we discuss some common misinterpretations of the ontology and the annotations. A better understanding of the pitfalls and the biases in the GO should help users make the most of this very rich resource. We also review some of the misconceptions and misleading assumptions commonly made about GO, including the effect of data incompleteness, the importance of annotation qualifiers, and the transitivity or lack thereof associated with different ontology relations. We also discuss several biases that can confound aggregate analyses such as gene enrichment analyses. For each of these pitfalls and biases, we suggest remedies and best practices.
机构、总结、中文摘要均由AI分析而来，可能存在错误，请以论文正文为准。
