Gene family data from the PhyloGenes (release version 3.0, phylogenes.org)

The data files were generated from the PhyloGenes 3.0 release (see release notes here). About the two zip files: 1. phyloXML.zip PhyloGenes gene family trees in PhyloXML format, one file per family (e.g. &lt;family_ID&gt;.xml). The following information is provided for each node of a tree:<br> 1) leaf node:<br> branch length<br> name &lt;gene_id&gt;<br> taxonomy scientific_name<br> sequence accession &lt;UniProt ID&gt; 2) non-leaf node:<br> branch length<br> events &lt;duplication or speciation&gt; <br> 2. CSV.zip Functional information of family members in CSV format, one file per family (e.g. &lt;family_ID&gt;.csv). A CSV file includes the following columns:<br> Uniprot ID<br> Gene &lt;Gene name. If none then Gene ID&gt;<br> Gene ID<br> Gene name<br> Organism<br> Subfamily name The columns displayed after 'Subfamily name', if any, are GO annotations. Each column is a GO molecular function or biological process term that is annotated to at least one member of the gene family AND the annotation is supported by an experimental evidence (indicated by 'EXP') or phylogenetic inference (indicated by 'IBA'). A '0' indicates absence of either annotations.本数据集文件源自PhyloGenes 3.0版本发布包（详见此处的版本说明）。关于两个压缩文件的详细说明如下： 1. phyloXML.zip：存储PhyloGenes的基因家族树，格式为PhyloXML，每个基因家族对应一个单独文件，命名格式为<family_ID>.xml。针对每棵演化树的所有节点，将提供以下信息： 1) 叶节点： 分支长度、节点名称<gene_id>、分类学科学名称、序列登录号<UniProt ID> 2) 非叶节点： 分支长度、演化事件<基因复制或物种形成> 2. CSV.zip：以逗号分隔值（CSV）格式存储基因家族成员的功能注释信息，每个基因家族对应一个单独文件，命名格式为<family_ID>.csv。单个CSV文件包含以下列： UniProt ID、基因<若未提供基因名称，则使用基因ID>、基因ID、基因名称、物种、亚家族名称。 若"亚家族名称"列后还存在其他列，则均为基因本体（Gene Ontology，GO）注释项。每一列对应一个GO分子功能或生物过程术语，且该注释至少被对应基因家族的一名成员所标注，同时注释需满足以下任一证据支持类型：实验证据（以"EXP"标识）或系统发育推断（以"IBA"标识）。若某家族成员无上述任意一类注释，则以"0"表示。