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（Epithelial-Mesenchymal Transition, EMT）过程中磷酸化位点丰度变化的时序监测。(A) 五个时间点下所有已鉴定与定量的磷酸化位点总表。蛋白质ID参考自UniProt数据库。Mod site（修饰位点）标注了蛋白质氨基酸（aa）序列中被磷酸化的丝氨酸（S）、苏氨酸（T）或酪氨酸（Y）残基。Localization prob（位点定位置信度）为磷酸化位点定位的置信得分，1代表完全无歧义。Sequence window（序列窗口）标注了蛋白质内的31个氨基酸残基区段。磷酸化位点强度包含原始强度，以及基于蛋白质丰度（生物学重复平均值，n=3）校正后的标准化log₂转换磷酸化位点丰度。0 min_S与0 min_L对应图1b。ANOVA p值（方差分析p值）为磷酸化水平的方差分析p值。Cluster number（聚类编号）对应图S4A（空白表示该磷酸化位点未用于聚类）；isClusterMember（是否为聚类成员）用于判定该蛋白质是否显著归属于指定聚类；‘is Kinase’（是否为激酶）用于判定该蛋白质是否属于激酶组（kinome）；‘is related with histone PTMs’（是否与组蛋白翻译后修饰相关）用于判定该蛋白质是否已被报道为组蛋白翻译后修饰调控因子。(B) 由iGPS预测的、介导显著调控变化的激酶（p值