Publications

  • Sourajyoti Datta, Muhammad Nabeel Asim, Andreas Dengel, Sheraz Ahmed A robust and precise machine learning framework for in silico identification of Tyrosine nitration sites in protein sequences Briefings in Functional Genomics .2023. DOI: 10.1093/bfgp/elad018
  • Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Ahtisham Fazeel, Andreas Dengel, Sheraz Ahmed A generalized DNA modifications predictor for multiple species based on powerful sequence encoding method Briefings in Bioinformatics .2023. DOI: 10.1093/bib/bbac546
  • Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Muhammad Imran Malik, Andreas Dengel, Sheraz Ahmed An attention-based deep hybrid model for protein-protein interaction prediction Briefings in Bioinformatics .2022. DOI: 10.1016/j.isci.2022.105169
  • Muhammad Nabeel Asim, Ahtisham Fazeel, Muhammad Ali Ibrahim, Andreas Dengel, Sheraz Ahmed Meta predictor for viral host protein-protein interaction prediction in multiple hosts and viruses Frontiers in Medicine .2022. DOI: 10.3389/fmed.2022.1025887
  • Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Christoph Zehe, Johan Trygg, Andreas Dengel, Sheraz Ahmed A lightweight bag of tricks-based neural network for efficient LncRNA–miRNA interaction prediction Interdisciplinary Sciences: Computational Life Sciences .2022. DOI: 10.1007/s12539-022-00535-x
  • Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Muhammad Imran Malik, Christoph Zehe, Olivier Cloarec, Johan Trygg, Andreas Dengel, Sheraz Ahmed An explainable LSTM network for RNA-associated multi-compartment localization prediction Computational and Structural Biotechnology Journal .2022. DOI: 10.1016/j.csbj.2022.07.031
  • Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Muhammad Imran Malik, Imran Razzak, Andreas Dengel, Sheraz Ahmed A multi-paradigm computational framework for histone occupancy and modification prediction Complex & Intelligent Systems .2022. DOI: 10.1007/s40747-022-00802-w
  • Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Muhammad Imran Malik, Andreas Dengel, Sheraz Ahmed A local-global residue context aware viral-host protein-protein interaction predictor Plos one .2022. DOI: 10.1371/journal.pone.0270275
  • Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Muhammad Imran Malik, Andreas Dengel, Sheraz Ahmed A Computational Framework for Circular RNA Sub-Cellular Localization Prediction International Journal of Molecular Sciences .2022. DOI: 10.3390/ijms23158221
  • Marco Stricker, Muhammad Nabeel Asim, Andreas Dengel, Sheraz Ahmed CircNet: an encoder–decoder-based convolution neural network (CNN) for circular RNA identification Neural Computing and Applications .2022. DOI: 10.1007/s00521-020-05673-1
  • Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Muhammad Imran Malik, Andreas Dengel and Sheraz Ahmed Advances in Computational Methodologies for Classification and Sub-Cellular Locality Prediction of Non-Coding RNAs International Journal of Molecular Sciences .2021. DOI: 10.3390/ijms22168719
  • Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Christoph Zehe., Cloarec, O., Sjogren, R., Johan Trygg, Andreas Dengel and Sheraz Ahmed A Lightweight Two Stage MiRNA Sub-Cellular Localization Prediction Framework International Joint Conference on Neural Networks, (IJCNN-2021). DOI: 10.1109/IJCNN52387.2021.9534015
  • Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Muhammad Imran Malik, Andreas Dengel and Sheraz Ahmed. Machine Learning-Based Prediction of Channelrhodopsins Proteins within Plasma Membrane IEEE EMBSInternational Conference on Biomedical and Health Informatics, (BHI-2021). DOI: 10.1109/BHI50953.2021.9508615
  • Muhammad Nabeel Asim, Muhammad Imran Malik, Christoph Zehe, Johan Trygg, Andreas Dengel, Sheraz Ahmed A Robust and Precise ConvNet for Small Non-Coding RNA Classification (RPC-snRC) IEEE .2020. DOI: 10.1109/ACCESS.2020.3037642
  • Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Muhammad Imran Malik, Andreas Dengel, Sheraz Ahmed Enhancer-DSNet: A Supervisedly Prepared Enriched Sequence Representation for the Identification of Enhancers and Their Strength International Conference on Neural Information Processing .2020. DOI: 10.1007/978-3-030-63836-8_4
  • Muhammad Nabeel Asim, Muhammad Imran Malik, Christoph Zehe, Johan Trygg, Andreas Dengel and Sheraz Ahmed A ConvNet-Based MultiLabel MicroRNA Subcellular Localization Predictor by Incorporating k-Mer Positional Information Genes .2020. DOI: 10.3390/genes11121475
  • Muhammad Nabeel Asim, Muhammad Imran Malik, Andreas Dengel and Sheraz Ahmed ”K-mer Neural Embedding Performance Analysis Using Amino Acid Codons International Joint Conference on Neural Networks, (IJCNN-2020). 11414_IJCNN_2020