iLMS, Computational Identification of Lysine-Malonylation Sites by Combining Multiple Sequence Features. - Md. Mehedi Hasan 002; Hiroyuki Kurata (BIBE, 2018)

SIPMA: A Systematic Identification of Protein-Protein Interactions in Zea mays Using Autocorrelation Features in a Machine-Learning Framework. - Mst. Shamima Khatun; Md. Mehedi Hasan 002; Md. Nurul Haque Mollah; Hiroyuki Kurata (BIBE, 2018)

HLPpred-Fuse: improved and robust prediction of hemolytic peptide and its activity by fusing multiple feature representation. - Md. Mehedi Hasan 002; Nalini Schaduangrat; Shaherin Basith; Gwang Lee; Watshara Shoombuatong; Balachandran Manavalan (Bioinform., 2020)

Computational prediction of protein ubiquitination sites mapping on Arabidopsis thaliana. - Md. Parvez Mosharaf; Md. Mehedi Hasan 002; Fee Faysal Ahmed; Mst. Shamima Khatun; Mohammad Ali Moni; Md. Nurul Haque Mollah (Comput. Biol. Chem., 2020)

iLBE for Computational Identification of Linear B-cell Epitopes by Integrating Sequence and Evolutionary Features. - Md. Mehedi Hasan 002; Mst. Shamima Khatun; Hiroyuki Kurata (Genom. Proteom. Bioinform., 2020)

Meta-iPVP: a sequence-based meta-predictor for improving the prediction of phage virion proteins using effective feature representation. - Phasit Charoenkwan; Chanin Nantasenamat; Md. Mehedi Hasan 002; Watshara Shoombuatong (J. Comput. Aided Mol. Des., 2020)

ProIn-Fuse: improved and robust prediction of proinflammatory peptides by fusing of multiple feature representations. - Mst. Shamima Khatun; Md. Mehedi Hasan 002; Watshara Shoombuatong; Hiroyuki Kurata (J. Comput. Aided Mol. Des., 2020)

iUmami-SCM: A Novel Sequence-Based Predictor for Prediction and Analysis of Umami Peptides Using a Scoring Card Method with Propensity Scores of Dipeptides. - Phasit Charoenkwan; Janchai Yana; Chanin Nantasenamat; Md. Mehedi Hasan 002; Watshara Shoombuatong (J. Chem. Inf. Model., 2020)

NeuroPred-FRL: an interpretable prediction model for identifying neuropeptide using feature representation learning. - Md. Mehedi Hasan 002; Md. Ashad Alam; Watshara Shoombuatong; Hong-Wen Deng; Balachandran Manavalan; Hiroyuki Kurata (Briefings Bioinform., 2021)

Integrative machine learning framework for the identification of cell-specific enhancers from the human genome. - Shaherin Basith; Md. Mehedi Hasan 002; Gwang Lee; Leyi Wei; Balachandran Manavalan (Briefings Bioinform., 2021)

StackIL6: a stacking ensemble model for improving the prediction of IL-6 inducing peptides. - Phasit Charoenkwan; Wararat Chiangjong; Chanin Nantasenamat; Md. Mehedi Hasan 002; Balachandran Manavalan; Watshara Shoombuatong (Briefings Bioinform., 2021)

Meta-i6mA: an interspecies predictor for identifying DNA N6-methyladenine sites of plant genomes by exploiting informative features in an integrative machine-learning framework. - Md. Mehedi Hasan 002; Shaherin Basith; Mst. Shamima Khatun; Gwang Lee; Balachandran Manavalan; Hiroyuki Kurata (Briefings Bioinform., 2021)

LSTM-PHV: prediction of human-virus protein-protein interactions by LSTM with word2vec. - Sho Tsukiyama; Md. Mehedi Hasan 002; Satoshi Fujii; Hiroyuki Kurata (Briefings Bioinform., 2021)

BERT4Bitter: a bidirectional encoder representations from transformers (BERT)-based model for improving the prediction of bitter peptides. - Phasit Charoenkwan; Chanin Nantasenamat; Md. Mehedi Hasan 002; Balachandran Manavalan; Watshara Shoombuatong (Bioinform., 2021)

Convolutional neural networks with image representation of amino acid sequences for protein function prediction. - Samia Tasnim Sara; Md. Mehedi Hasan 002; Ahsan Ahmad; Swakkhar Shatabda (Comput. Biol. Chem., 2021)

IRC-Fuse: improved and robust prediction of redox-sensitive cysteine by fusing of multiple feature representations. - Md. Mehedi Hasan 002; Md. Ashad Alam; Watshara Shoombuatong; Hiroyuki Kurata (J. Comput. Aided Mol. Des., 2021)

TACOS: a novel approach for accurate prediction of cell-specific long noncoding RNAs subcellular localization. - Young-Jun Jeon; Md. Mehedi Hasan 002; Hyun Woo Park; Ki Wook Lee; Balachandran Manavalan (Briefings Bioinform., 2022)

BERT6mA: prediction of DNA N6-methyladenine site using deep learning-based approaches. - Sho Tsukiyama; Md. Mehedi Hasan 002; Hong-Wen Deng; Hiroyuki Kurata (Briefings Bioinform., 2022)

DeepDNAbP: A deep learning-based hybrid approach to improve the identification of deoxyribonucleic acid-binding proteins. - Md. Faruk Hosen; S. M. Hasan Mahmud; Kawsar Ahmed; Wenyu Chen; Mohammad Ali Moni; Hong-Wen Deng; Watshara Shoombuatong; Md. Mehedi Hasan 002 (Comput. Biol. Medicine, 2022)

PSRTTCA: A new approach for improving the prediction and characterization of tumor T cell antigens using propensity score representation learning. - Phasit Charoenkwan; Chonlatip Pipattanaboon; Chanin Nantasenamat; Md. Mehedi Hasan 002; Mohammad Ali Moni; Pietro Lio'; Watshara Shoombuatong (Comput. Biol. Medicine, 2023)

Decentralized Medical Image Sharing: A Blockchain Based Approach with Subject Sensitive Hashing for Enhanced Privacy and Integrity. - Yeasir Arafat; Abu Sayem Md. Siam; Md Muzadded Chowdhury; Md. Mehedi Hasan 002; Sayed Hossain Jobayer; Swakkhar Shatabda; Salekul Islam; Saddam Hossain Mukta (IET Blockchain, 2025)