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pACP-HybDeep: predicting anticancer peptides using binary tree growth based transformer and structural feature

Shahid1, Maqsood Hayat2, Wajdi Alghamdi3

  • 1Department of Computer Science, Abdul Wali Khan University Mardan, Mardan, 23200, KP, Pakistan.

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|January 3, 2025
PubMed
Summary
This summary is machine-generated.

This study introduces pACP-HybDeep, a novel computational model for predicting anticancer peptides. The model achieves high accuracy, offering a reliable tool for cancer drug discovery and development.

Keywords:
Anticancer peptidesBinary tree growth feature selectionDeep Hybrid neural networkPhysiochemical propertiesTransformer encoder

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Area of Science:

  • Computational Biology
  • Biotechnology
  • Drug Discovery

Background:

  • Cancer poses a global health challenge with high mortality rates.
  • Traditional cancer therapies have limitations, including cost and side effects.
  • Anticancer peptides offer targeted action with minimal adverse effects.

Purpose of the Study:

  • To develop a highly reliable and effective computational model for predicting anticancer peptides.
  • To address the limitations of existing cancer treatment methods.
  • To aid researchers in academia and pharmaceutical drug design.

Main Methods:

  • Numerical encoding of peptides using an attention-based ProtBERT-BFD encoder for semantic features.
  • Integration of CTDT-based structural information.
  • Feature selection using a k-nearest neighbor-based binary tree growth (BTG) algorithm.
  • Training with a CNN+RNN-based deep learning model.

Main Results:

  • The pACP-HybDeep model achieved a training accuracy of 95.33% and an AUC of 0.97.
  • Independent dataset validation yielded accuracies of 94.92% (Ind-S1), 92.26% (Ind-S2), and 91.16% (Ind-S3).
  • The model demonstrated high efficacy and reliability on test datasets.

Conclusions:

  • The pACP-HybDeep model is a valuable and reliable tool for predicting anticancer peptides.
  • This computational approach can significantly advance cancer drug discovery.
  • The model's performance supports its application in pharmaceutical research and development.