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BMC Bioinformatics|March 8, 2024
Deepstacked-AVPs: predicting antiviral peptides using tri-segment evolutionary profile and word embedding based multi-perspective features with deep stacking modelShahid Akbar, Ali Raza, Quan ZouBioinformatics (Oxford, England)|May 6, 2024
DeepAVP-TPPred: identification of antiviral peptides using transformed image-based localized descriptors and binary tree growth algorithmMatee Ullah, Shahid Akbar, Ali Raza, et al.Artificial Intelligence in Medicine|March 29, 2024
iAFPs-Mv-BiTCN: Predicting antifungal peptides using self-attention transformer embedding and transform evolutionary based multi-view features with bidirectional temporal convolutional networksShahid Akbar, Quan Zou, Ali Raza, et al.Journal of Chemical Information and Modeling|December 3, 2024
DeepAIPs-Pred: Predicting Anti-Inflammatory Peptides Using Local Evolutionary Transformation Images and Structural Embedding-Based Optimal Descriptors with Self-Normalized BiTCNsShahid Akbar, Matee Ullah, Ali Raza, et al.Briefings in Bioinformatics|January 23, 2025
TargetCLP: clathrin proteins prediction combining transformed and evolutionary scale modeling-based multi-view features via weighted feature integration approachMatee Ullah, Shahid Akbar, Ali Raza, et al.ACS Omega|August 25, 2025
DeepAIPs-SFLA: Deep Convolutional Model for Prediction of Anti-Inflammatory Peptides Using Binary Pattern Decomposition of Novel Multiview Descriptors with an SFLA ApproachShahid Akbar, Ali Raza, Wajdi Alghamdi, et al.BMC Biology|February 12, 2026
Deep capsule neural network for identifying anticancer peptides using sequence to image transformation-based local embedded featuresShahid Akbar, Ali Raza, Matee Ullah, et al.Iscience|December 24, 2025
Identifying protein succinylation sites using generative transformer and a two-dimensional representation with a deep capsule networkShahid Akbar, Ali Raza, Wajdi Alghamdi, et al.Journal of Chemical Information and Modeling|October 31, 2023
AIPs-SnTCN: Predicting Anti-Inflammatory Peptides Using fastText and Transformer Encoder-Based Hybrid Word Embedding with Self-Normalized Temporal Convolutional NetworksAli Raza, Jamal Uddin, Abdullah Almuhaimeed, et al.Computational Biology and Chemistry|April 1, 2025
pACPs-DNN: Predicting anticancer peptides using novel peptide transformation into evolutionary and structure matrix-based images with self-attention deep learning modelShahid, Maqsood Hayat, Ali Raza, et al.Pageof 220