Wang Lin, Huang Juxiang, Jiang Minghu, Diao Haizhen, Zhou Huilei, Li Xiaohe, Chen Qingchun, Jiang Zhenfu, Feng Haitao
Bioinformatics Center, School of Electronic Engineering, Beijing University of Posts and Telecommunications, Beijing, 100876, China,
Cell Biochem Biophys. 2014 Sep;70(1):279-88. doi: 10.1007/s12013-014-9902-y.
To understand adenosylmethionine decarboxylase 1 (AMD1)-mediated mRNA processing and cell adhesion activated & inhibited transition mechanisms between chimpanzee and human left hemisphere, AMD1-activated different complete (all no positive correlation, Pearson correlation coefficient < 0.25) and uncomplete (partly no positive correlation except AMD1, Pearson < 0.25) networks were identified in higher human compared with lower chimpanzee left hemisphere from the corresponding AMD1-stimulated (Pearson ≥ 0.25) or inhibited (Pearson ≤ -0.25) overlapping molecules of Pearson and GRNInfer, respectively. This result was verified by the corresponding scatter matrix. As visualized by GO, KEGG, GenMAPP, BioCarta, and disease database integration, we proposed mainly that AMD1-stimulated different complete network was involved in AMD1 activation with cytoplasm ubiquitin specific peptidase (tRNA-guanine transglycosylase) to nucleus paired box-induced mRNA processing, whereas the corresponding inhibited network participated in AMD1 repression with cytoplasm protocadherin gamma and adaptor-related protein complex 3-induced cell adhesion in lower chimpanzee left hemisphere. However, AMD1-stimulated network contained AMD1 activation with plakophilin and phosphodiesterase to SH3 binding glutamic acid-rich protein to dynein and zinc finger-induced cell adhesion, whereas the corresponding inhibited different complete network included AMD1 repression with mitochondrial denine nucleotide translocator, brain protein, and ADH dehydrogenase to ribonucleoprotein-induced mRNA processing in higher human left hemisphere. Our AMD1 different networks were verified by AMD1-activated or -inhibited complete and uncomplete networks within and between chimpanzee left hemisphere or (and) human left hemisphere.
为了解腺苷甲硫氨酸脱羧酶1（AMD1）介导的mRNA加工以及黑猩猩和人类左半球之间细胞黏附激活与抑制的转换机制，在人类左半球与黑猩猩左半球相比更高等的情况下，分别从Pearson和GRNInfer相应的AMD1刺激（Pearson≥0.25）或抑制（Pearson≤-0.25）的重叠分子中，鉴定出AMD1激活的不同完整（所有均无正相关，Pearson相关系数<0.25）和不完整（除AMD1外部分无正相关，Pearson<0.25）网络。该结果通过相应的散点矩阵得到验证。通过GO、KEGG、GenMAPP、BioCarta和疾病数据库整合可视化分析，我们主要提出，AMD1刺激的不同完整网络参与了AMD1与细胞质泛素特异性肽酶（tRNA-鸟嘌呤转糖基酶）激活至细胞核配对盒诱导的mRNA加工过程，而相应的抑制网络则参与了黑猩猩左半球较低水平时AMD1与细胞质原钙黏蛋白γ和衔接蛋白相关蛋白复合物3诱导的细胞黏附抑制过程。然而，AMD1刺激的网络包含AMD1与桥粒斑蛋白和磷酸二酯酶激活至SH3结合富含谷氨酸蛋白至动力蛋白和锌指诱导的细胞黏附过程，而相应的抑制不同完整网络包括人类左半球较高水平时AMD1与线粒体腺嘌呤核苷酸转运体、脑蛋白和乙醇脱氢酶抑制至核糖核蛋白诱导的mRNA加工过程。我们的AMD1不同网络通过黑猩猩左半球内和之间以及人类左半球内和之间的AMD1激活或抑制的完整和不完整网络得到了验证。
