Dhanda Sandeep Kumar, Gupta Sudheer, Vir Pooja, Raghava G P S
Bioinformatics Centre, CSIR-Institute of Microbial Technology, Chandigarh 160036, India.
Clin Dev Immunol. 2013;2013:263952. doi: 10.1155/2013/263952. Epub 2013 Dec 30.
The secretion of Interleukin-4 (IL4) is the characteristic of T-helper 2 responses. IL4 is a cytokine produced by CD4+ T cells in response to helminthes and other extracellular parasites. It has a critical role in guiding antibody class switching, hematopoiesis and inflammation, and the development of appropriate effector T-cell responses. In this study, it is the first time an attempt has been made to understand whether it is possible to predict IL4 inducing peptides. The data set used in this study comprises 904 experimentally validated IL4 inducing and 742 noninducing MHC class II binders. Our analysis revealed that certain types of residues are preferred at certain positions in IL4 inducing peptides. It was also observed that IL4 inducing and noninducing epitopes differ in compositional and motif pattern. Based on our analysis we developed classification models where the hybrid method of amino acid pairs and motif information performed the best with maximum accuracy of 75.76% and MCC of 0.51. These results indicate that it is possible to predict IL4 inducing peptides with reasonable precession. These models would be useful in designing the peptides that may induce desired Th2 response.
白细胞介素-4（IL4）的分泌是辅助性T细胞2型反应的特征。IL4是CD4 + T细胞针对蠕虫和其他细胞外寄生虫产生的一种细胞因子。它在指导抗体类别转换、造血和炎症以及适当的效应T细胞反应的发展中起关键作用。在本研究中，首次尝试了解是否有可能预测IL4诱导肽。本研究中使用的数据集包括904个经实验验证的IL4诱导型和742个非诱导型MHC II类结合物。我们的分析表明，IL4诱导肽的某些位置倾向于特定类型的残基。还观察到，IL4诱导型和非诱导型表位在组成和基序模式上有所不同。基于我们的分析，我们开发了分类模型，其中氨基酸对和基序信息的混合方法表现最佳，最大准确率为75.76%，马修斯相关系数为0.51。这些结果表明，有可能以合理的精度预测IL4诱导肽。这些模型将有助于设计可能诱导所需Th2反应的肽。
