Nhat Truong Pham

Ph.D. Student in Integrative Biotechnology specializing in 🧬Applied Machine Learning/Deep Learning for Computational Biology and Bioinformatics🧬


Room 62105, Biotechnology and Bioengineering Building 2, Seobu-ro, Jangan-gu, Suwon-si, Gyeonggi-do, 16419, Republic of Korea

Short Bio: My name is Phạm Nhật Trường - Vietnamese. I am currently a first/second-year Ph.D. Student at the Department of Integrative Biotechnology, College of Biotechnology and Bioengineering, Sungkyunkwan University (SKKU), Republic of Korea. I am working under the guidance of Assistant Professor Balachandran Manavalan in the Computational Biology and Bioinformatics Laboratory. Prior to joining SKKU, I have worked as an Assistant Researcher at Ton Duc Thang University (TDTU), Vietnam. I completed my M.E. degree in Automation and Control at TDTU, where I was supervised by Dr. Sy Dzung Nguyen and co-supervised by Dr. Duc Ngoc Minh Dang. I also hold a B.E. degree in Electronics and Telecommunication from TDTU, which I obtained in 2019 under the supervision of Dr. Duc Ngoc Minh Dang.

Research Interests: Artificial Intelligence, Computational Intelligence, Deep Learning, Machine Learning, Signal Processing, XAI & Optimization, and their applications in the fields of Affective Computing, Audio & Speech Processing, Bioinformatics, Computational Biology & Medicine, Computer-aided Drug Design, Multi-omics, NeuroAI, Protein Design, and Protein Functional & Structural Prediction.

Inspirational Quotes:

Your origin does not determine what kind of person you are. Only you can decide who you become. - Meng Chih Chiang

Life can be heavy, especially if you try to carry it all at once. - Taylor Swift

Life can be seen as a balance between positive and negative aspects throughout its entirety. Therefore, it's essential to cherish every moment and embrace life fully. - Nhat Truong Pham

$$ \begin{align*} \text{Life} &= \int_{\text{birth}}^{\infty} \left(\frac{\text{Happiness} \times \text{Love} \times \text{Peace}}{\text{time}} - \frac{\text{Sadness} \times \text{Revenge} \times \text{Discord}}{\text{time}}\right) \, \text{dtime} \\ &= \int_{\text{birth}}^{\rm{t_{2024}}} \left(\frac{\text{Happiness} \times \text{Love} \times \text{Peace}}{\text{time}} - \frac{\text{Sadness} \times \text{Revenge} \times \text{Discord}}{\text{time}}\right) \, \text{dtime} \\ &\quad + \int_{\rm{t_{2024}}}^{\infty} \left(\frac{\text{Happiness}' \times \text{Love}' \times \text{Peace}'}{\text{time}} - \frac{\text{Sadness}' \times \text{Revenge}' \times \text{Discord}'}{\text{time}}\right) \, \text{dtime} \end{align*} $$

Latest News

Apr 18, 2024 One manuscript entitled ac4C-AFL: A high-precision identification of human mRNA N4-acetylcytidine sites based on adaptive feature representation learning” has been accepted for publication in the Molecular Therapy - Nucleic Acids journal
Apr 12, 2024 Our project, entitled “Enhancing m6A RNA modification prediction across cell lines and tissues using biological language models and a contrastive learning framework”, has been selected for the High-Performance Computing Support Project by the Korea Association for ICT Promotion (KAIT), Republic of Korea
Apr 1, 2024 Our project, entitled “Enhancing Peptide-HLA Class I Binding Prediction through Siamese Network-Based Contrastive Learning Framework with Feature Fusion (펩타이드-HLA Class I 결합 예측 강화를 위한 특징 융합 기반 시암 네트워크 대조 학습 프레임워크)”, has been selected for the 2024 1st K-BDS analysis infrastructure utilization support program ([Track I] Large innovation research) by the Korea Bio Data Station (K-BDS), Korea Institute of Science and Technology Information, Republic of Korea
Mar 12, 2024 Our Research Story (KOR/ENG) regarding the recently published papers in the Briefings in Bioinformatics journal has been highlighted on SKKU’s Research Stories (KOR/ENG)
Jan 8, 2024 Our paper, entitled H2Opred: a robust and efficient hybrid deep learning model for predicting 2’-O-methylation sites in human RNA”, recently published in the Briefings in Bioinformatics journal, has been cataloged in Hanbitsa Paper of the Biological Research Information Center (BRIC)

Selected Publications

(†) denotes equal contribution

(*) denotes correspondance

denotes journal

denotes conference


  1. ac4C-AFL.png
    ac4C-AFL: A high-precision identification of human mRNA N4-acetylcytidine sites based on adaptive feature representation learning
    Nhat Truong Pham, Annie Terrina Terrance, Young-Jun Jeon, Rajan Rakkiyappan, and Balachandran Manavalan
    Molecular Therapy-Nucleic Acids, 2024
  2. H2Opred.jpeg
    H2Opred: a robust and efficient hybrid deep learning model for predicting 2’-O-methylation sites in human RNA
    Briefings in Bioinformatics, 2024
  3. MeL-STPhos.jpeg
    Advancing the accuracy of SARS-CoV-2 phosphorylation site detection via meta-learning approach
    Nhat Truong Pham(†), Le Thi Phan(†), Jimin Seo, Yeonwoo Kim, Minkyung Song, Sukchan Lee, Young-Jun Jeon, and Balachandran Manavalan
    Briefings in Bioinformatics, 2024


  1. AAD-Net.jpg
    AAD-Net: Advanced end-to-end signal processing system for human emotion detection & recognition using attention-based deep echo state network
    Mustaqeem KhanAbdulmotaleb El Saddik, Fahd Saleh Alotaibi, and Nhat Truong Pham
    Knowledge-Based Systems, 2023
  2. HDA_mADCRNN.jpg
    Hybrid data augmentation and deep attention-based dilated convolutional-recurrent neural networks for speech emotion recognition
    Expert Systems with Applications, 2023
  3. Fruit-CoV.jpg
    Fruit-CoV: An efficient vision-based framework for speedy detection and diagnosis of SARS-CoV-2 infections through recorded cough sounds
    Long H Nguyen(†)Nhat Truong Pham(†)(*), Van Huong Do, Liu Tai Nguyen, Thanh Tin Nguyen6Hai Nguyen4Ngoc Duy Nguyen2Thanh Thi Nguyen3Sy Dzung Nguyen1, Asim Bhatti, and Chee Peng Lim
    Expert Systems with Applications, 2023


  1. mVina.jpeg
    Improving ligand-ranking of AutoDock Vina by changing the empirical parameters
    T Ngoc Han PhamTrung Hai Nguyen5, Nguyen Minh Tam, Thien Y. Vu, Nhat Truong Pham, Nguyen Truong Huy, Binh Khanh Mai, Nguyen Thanh Tung, Minh Quan Pham, Van V. Vu, and Son Tung Ngo
    Journal of Computational Chemistry, 2022
  2. fRiskC.gif
    Determination of the optimal number of clusters: a fuzzy-set based method
    Sy Dzung Nguyen1, Vu Song Thuy Nguyen, and Nhat Truong Pham
    IEEE Transactions on Fuzzy Systems, 2022