深度人工智能粒子群优化算法:基于新型多视图描述符的二元模式分解与粒子群优化算法的深度卷积模型用于抗炎肽预测
DeepAIPs-SFLA: Deep Convolutional Model for Prediction of Anti-Inflammatory Peptides Using Binary Pattern Decomposition of Novel Multiview Descriptors with an SFLA Approach.
作者信息
Akbar Shahid, Raza Ali, Alghamdi Wajdi, Saeed Aamir, Ali Hashim, Zou Quan
机构信息
Institute of Fundamental and Frontier Sciences, University of Electronic Science and Technology of China, Chengdu 610054, China.
Department of Computer Science, Abdul Wali Khan University Mardan, Mardan 23200, Pakistan.
出版信息
ACS Omega. 2025 Aug 5;10(32):35747-35762. doi: 10.1021/acsomega.5c02422. eCollection 2025 Aug 19.
Inflammation is a vital biological response of the human immune system to harmful stimuli, and it plays a vital role in tissue repair and pathogen elimination. However, chronic inflammation can lead to severe diseases such as arthritis, cancer, cardiovascular disorders, and autoimmune conditions. Anti-inflammatory peptides (AIPs) have emerged as promising therapeutic agents owing to their high selectivity, potency toward target cells, and minimal side effects. Although numerous computational predictors exist for predicting AIP samples, most rely on traditional compositional features that fail to capture internal sequence ordering, local structural variations, and evolutionary information to determine peptide functionality. To address these problems, we propose DeepAIPs-SFLA, a novel deep learning-based computational model that integrates evolutionary information and structural features using advanced image-based encoding. The training sequences were transformed into two-dimensional structural and evolutionary images using RECM and PSSM embeddings. These images were further decomposed using LBP and CLBP algorithms, resulting in novel local texture descriptors: RECM_CLBP, PSSM_CLBP, and RECM_LBP. A differential evolution-based feature integration method was employed to construct a comprehensive multiview feature vector. Subsequently, an enhanced genetic algorithm-based shuffled frog-leaping algorithm (SFLA) was applied for optimal feature selection. An optimal feature set was used to train a deep residual convolutional neural network (RCNN). Our developed DeepAIPs-SFLA model attained an outstanding predictive accuracy of 97.04% with an AUC of 0.98 using the training sequences. The model was validated via independent sets to examine its generalization power, demonstrating substantial enhancements of 13 and 2% in accuracy compared with available predictors on the Ind-426 and Ind-1049 data sets, respectively. The robustness and efficacy of DeepAIPs-SFLA represent its potential as a valuable model for advancing academic research and drug discovery for inflammatory diseases.
炎症是人体免疫系统对有害刺激的一种重要生物学反应,在组织修复和病原体清除中起着至关重要的作用。然而,慢性炎症会导致严重疾病,如关节炎、癌症、心血管疾病和自身免疫性疾病。抗炎肽(AIPs)因其高选择性、对靶细胞的效力以及最小的副作用,已成为有前景的治疗剂。尽管存在许多用于预测AIP样本的计算预测器,但大多数依赖于传统的组成特征,这些特征无法捕捉内部序列顺序、局部结构变异和进化信息来确定肽的功能。为了解决这些问题,我们提出了DeepAIPs-SFLA,这是一种基于深度学习的新型计算模型,它使用先进的基于图像的编码来整合进化信息和结构特征。使用RECM和PSSM嵌入将训练序列转换为二维结构和进化图像。这些图像使用LBP和CLBP算法进一步分解,产生了新的局部纹理描述符:RECM_CLBP、PSSM_CLBP和RECM_LBP。采用基于差分进化的特征集成方法构建综合多视图特征向量。随后,应用基于增强遗传算法的洗牌蛙跳算法(SFLA)进行最优特征选择。使用最优特征集训练深度残差卷积神经网络(RCNN)。我们开发的DeepAIPs-SFLA模型在使用训练序列时达到了97.04%的出色预测准确率,AUC为0.98。通过独立集对该模型进行验证以检验其泛化能力,结果表明,与Ind-426和Ind-1049数据集上的现有预测器相比,准确率分别大幅提高了13%和2%。DeepAIPs-SFLA的稳健性和有效性表明其作为推进炎症性疾病学术研究和药物发现的有价值模型的潜力。