Additional file 4 of FT-GPI, a highly sensitive and accurate predictor of GPI-anchored proteins, reveals the composition and evolution of the GPI proteome in Plasmodium species

Additional file 4: Table S4. Description of proteins from the GPI-AP reference sets. A. P. falciparum reference set from Gilson, et al. [17]. Protein size, number of TM and signal 4.0 prediction were recovered from PlasmoDB. SignalP 5.0 and PredGPI were performed online [47,52]. Essential genes were described by a Mutation Index Score (MIS) and Fitness score (MFS) from transposon saturation mutagenesis experiments [77]. Sequences were downloaded from PlasmoDB release 51. B. P. vivax reference set from Carlton et al [38]. The list of GPI-APs was given in Suppl. Table 8 of the P. vivax genome paper. Sequence analysis was performed as in (A). No information was available concerning gene essentialness in P. vivax. Negative predictions are in red. * Some proteins had no gene names and were arbitrarily labelled from gpi1 to gpi4. P. falciparum Pf_gpi1 P. vivax ortholog was absent from Carlton et al list [38]. P. falciparum P36 ortholog was not in Gilson et al list [17]. The gpi3 protein was labelled as P32 in some references.

附加文件4：表S4。糖基磷脂酰肌醇锚定蛋白（Glycosylphosphatidylinositol-anchored protein，GPI-AP）参考集的蛋白质描述。
A. 源自Gilson等[17]的恶性疟原虫（*Plasmodium falciparum*，P. falciparum）参考集：蛋白质分子量、跨膜结构域（Transmembrane，TM）数量及Signal 4.0预测结果均从疟原虫数据库（PlasmoDB）提取；SignalP 5.0与PredGPI通过在线平台完成分析[47,52]。必需基因依据转座子饱和诱变实验获得的突变指数得分（Mutation Index Score，MIS）与适应度得分（Fitness score，MFS）进行注释[77]。序列数据下载自PlasmoDB 51版本。
B. 源自Carlton等[38]的间日疟原虫（*Plasmodium vivax*，P. vivax）参考集：该GPI-AP列表刊载于间日疟原虫基因组论文的补充表8。序列分析流程与(A)完全一致。目前暂无间日疟原虫基因必需性的相关研究数据。阴性预测结果以红色标记。* 部分蛋白质未赋予基因名称，被临时命名为gpi1至gpi4。恶性疟原虫Pf_gpi1的间日疟原虫同源蛋白未被纳入Carlton等[38]的列表中。恶性疟原虫P36的同源蛋白未收录于Gilson等[17]的参考集内。gpi3蛋白在部分参考文献中被标注为P32。