Publications by authors named "Muhammad Ali Ibrahim"

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DNA sequence analysis landscape: a comprehensive review of DNA sequence analysis task types, databases, datasets, word embedding methods, and language models.
Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Arooj Zaib, Andreas Dengel

Front Med (Lausanne)· April 2025

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RNA sequence analysis landscape: A comprehensive review of task types, databases, datasets, word embedding methods, and language models.
Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Tayyaba Asif, Andreas Dengel

Heliyon· January 2025

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ProSol-multi: Protein solubility prediction via amino acids multi-level correlation and discriminative distribution.
Hina Ghafoor, Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Andreas Dengel

Heliyon· September 2024

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CAPTURE: Comprehensive anti-cancer peptide predictor with a unique amino acid sequence encoder.
Hina Ghafoor, Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Sheraz Ahmed, Andreas Dengel

Comput Biol Med· June 2024

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DNA-MP: a generalized DNA modifications predictor for multiple species based on powerful sequence encoding method.
Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Ahtisham Fazeel, Andreas Dengel, Sheraz Ahmed

Brief Bioinform· January 2023

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BoT-Net: a lightweight bag of tricks-based neural network for efficient LncRNA-miRNA interaction prediction.
Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Christoph Zehe, Johan Trygg, Andreas Dengel

Interdiscip Sci· December 2022

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MP-VHPPI: Meta predictor for viral host protein-protein interaction prediction in multiple hosts and viruses.
Muhammad Nabeel Asim, Ahtisham Fazeel, Muhammad Ali Ibrahim, Andreas Dengel, Sheraz Ahmed

Front Med (Lausanne)· November 2022

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ADH-PPI: An attention-based deep hybrid model for protein-protein interaction prediction.
Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Muhammad Imran Malik, Andreas Dengel, Sheraz Ahmed

iScience· October 2022

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LGCA-VHPPI: A local-global residue context aware viral-host protein-protein interaction predictor.
Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Muhammad Imran Malik, Andreas Dengel, Sheraz Ahmed

PLoS One· July 2022

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Circ-LocNet: A Computational Framework for Circular RNA Sub-Cellular Localization Prediction.
Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Muhammad Imran Malik, Andreas Dengel, Sheraz Ahmed

Int J Mol Sci· July 2022

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EL-RMLocNet: An explainable LSTM network for RNA-associated multi-compartment localization prediction.
Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Muhammad Imran Malik, Christoph Zehe, Olivier Cloarec

Comput Struct Biotechnol J· July 2022

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Advances in Computational Methodologies for Classification and Sub-Cellular Locality Prediction of Non-Coding RNAs.
Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Muhammad Imran Malik, Andreas Dengel, Sheraz Ahmed

Int J Mol Sci· August 2021

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GHS-NET a generic hybridized shallow neural network for multi-label biomedical text classification.
Muhammad Ali Ibrahim, Muhammad Usman Ghani Khan, Faiza Mehmood, Muhammad Nabeel Asim, Waqar Mahmood

J Biomed Inform· April 2021

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