Balvočiūtė Monika, Huson Daniel H
University of Tübingen, Department of Computer Science, Sand 14, Tübingen, 72076, Germany.
BMC Genomics. 2017 Mar 14;18(Suppl 2):114. doi: 10.1186/s12864-017-3501-4.
A key step in microbiome sequencing analysis is read assignment to taxonomic units. This is often performed using one of four taxonomic classifications, namely SILVA, RDP, Greengenes or NCBI. It is unclear how similar these are and how to compare analysis results that are based on different taxonomies.
We provide a method and software for mapping taxonomic entities from one taxonomy onto another. We use it to compare the four taxonomies and the Open Tree of life Taxonomy (OTT).
While we find that SILVA, RDP and Greengenes map well into NCBI, and all four map well into the OTT, mapping the two larger taxonomies on to the smaller ones is problematic.
微生物组测序分析中的一个关键步骤是将读数分配到分类单元。这通常使用四种分类法之一来进行，即SILVA、RDP、Greengenes或NCBI。目前尚不清楚这些分类法的相似程度如何，以及如何比较基于不同分类法的分析结果。
我们提供了一种方法和软件，用于将一个分类法中的分类实体映射到另一个分类法中。我们用它来比较这四种分类法以及生命之树开放分类法（OTT）。
虽然我们发现SILVA、RDP和Greengenes能很好地映射到NCBI中，并且所有这四种分类法都能很好地映射到OTT中，但将两个较大的分类法映射到较小的分类法上存在问题。
