MOESM3 of Coordination between TGF-β cellular signaling and epigenetic regulation during epithelial to mesenchymal transition

Additional file 3: Table S2. Time-course monitoring of phosphorylation site abundance changes during EMT. (A) Total list of identified and quantified phosphosites across five time points. Protein IDs refer to UniProt database. Mod site highlights the phosphorylated S/T or Y residue within protein amino acid (aa) sequence. Localization prob is the confidence score for site localization of the phosphorylation (1 means fully unambiguous). Sequence window highlights the 31 aa residue within protein. Phosphosite intensity is the raw intensity and the normalized log2 transformed phosphosite abundance adjusted based on protein abundance (average of biological replicates, n = 3). 0 min_S and 0 min_L refer to Fig. 1b. ANOVA p value describes the ANOVA p value of phosphorylation levels. Cluster number refers to Figure S4A (blank means the indicated phosphosite was not used for clustering); isClusterMember determines whether the protein belongs significantly to the cluster assigned; ‘is Kinase’ determines whether the protein belongs to kinome; ‘is related with histone PTMs’ determines whether the protein has been described with histone PTMs modifiers. (B) Kinases predicted by iGPS which are responsible for significantly regulated (p value

附加文件3：表S2。上皮间质转化（EMT）过程中磷酸化位点丰度变化的时序监测。（A）五个时间点下已鉴定并定量的磷酸化位点总列表。蛋白质ID参考通用蛋白知识库（UniProt）。修饰位点（Mod site）指蛋白质氨基酸（aa）序列中被磷酸化的丝氨酸（S）、苏氨酸（T）或酪氨酸（Y）残基。定位置信度（Localization prob）为磷酸化位点定位的置信得分（1表示完全无歧义）。序列窗口（Sequence window）指蛋白质内的31个氨基酸残基区段。磷酸化位点强度（Phosphosite intensity）为原始强度值，以及基于蛋白质丰度校正后的经log₂转换归一化的磷酸化位点丰度（生物学重复的平均值，n=3）。0 min_S与0 min_L对应图1b。方差分析p值（ANOVA p value）指磷酸化水平的方差分析p值。聚类编号（Cluster number）对应图S4A（空白表示对应磷酸化位点未参与聚类）；isClusterMember用于判定该蛋白质是否显著属于所分配的聚类；"is Kinase"用于判定该蛋白质是否属于激酶组；"is related with histone PTMs"用于判定该蛋白质是否已被报道为组蛋白翻译后修饰（histone post-translational modifications，简称histone PTMs）调控因子。（B）通过iGPS预测的、负责调控显著变化（p值