Assembly and annotation for great gerbil

Approximantely 86x coverage of Illumina paired end reads were assembled with ALLPATHS-LG resulting in a highly contiguous scaffold assembly. <br>An iterative automatic annotation with MAKER2 using a mouse cDNA set (Ensembl) and proteins from Uniprot/SwissProt resulted in 70,974 predicted gene models. InterProScan was run on the predicted predicted proteins and gene names were allocated based on match with proteins in UniProt/SwissProt. We filtered this set based on Annotation Edit Distance (AED) using the deafult filtering parameter, creating a file set containing all genes with AED less than 1 (AED&lt;1). This resulted in 22,393 gene models.<br>

采用ALLPATHS-LG软件对约86倍覆盖度的Illumina双端测序reads进行组装，最终获得连续性优异的支架序列组装结果。
利用MAKER2软件，结合源自Ensembl数据库的小鼠cDNA数据集与UniProt/SwissProt数据库的蛋白质序列，通过迭代自动注释流程，共预测得到70974个基因模型。
对上述预测得到的蛋白质序列运行InterProScan注释，并基于与UniProt/SwissProt数据库中蛋白质的匹配结果分配基因名称。
我们采用默认过滤参数，基于注释编辑距离（Annotation Edit Distance, AED）对该基因集进行筛选，保留所有AED值小于1（AED<1）的基因，最终得到22393个基因模型。