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Introduction

In recent years, with the rapid development of modern gene sequencing and protein analysis techniques, the amount of digitized biological data has increased rapidly. Given the great complexity of DNA such as the number of up to about 3 billion nucleotides in the DNA of human cells, understanding the mechanism that controls the action of genes will require the assistance of computational algorithms which are capable of running on powerful computer systems. Therefore, bioinformatics is an interdisciplinary research field that is receiving great attention in order to apply information technology to solve important problems in biology, medicine, especially in biology molecular.

Our research group focuses on the study and development of machine learning methods to explore factors affecting transcription, translation as well as post-translational modification of proteins, to determine functions of proteins, and apply to supporting the treatment of human diseases such as cancer as well as reducing and removing the harmful effects of viruses and bacteria to humans. See the slides here for more detail.

Contact: Dr. Nguyen Hong Quang, Email: quangnh@soict.hust.edu.vn

Research Directions

  • Molecular biology research: Develop machine learning methods to predict gene expression as well as protein function.
  • Researching viruses and bacteria: Develop machine learning methods to predict the biological mechanisms of viruses and bacteria, thereby proposing solutions for each type.

Research Problems

  • Gene expression prediction: in humans as well as in plants and animals, different gene expression regulators allow different types of cells in the body to perform their specific functions. These control mechanisms include transcription, translation, and post-translation modification.
  • Protein structure and function prediction: Protein structure prediction is a technique that assigns biological or biochemical roles to proteins in relation to their genome sequence. The need to understand protein function has attracted the attention of researchers in studies with the aim of improving predictive efficiency.
  • Antibiotic-resistant bacteria prediction: Predict the types of bacteria that are resistant to current antibiotics and determine the concentrations of current antibiotics for these bacteria.
  • Predict the evolution of viruses: Predict the mutation of pathogenic viruses such as influenza A or corona virus as well as the expression of these viruses to the body’s immune system.
  • Support cancer treatment: Identify factors in the molecule that affect the transformation and growth of cancer cells.

Team Members

Dr. Nguyen Hong Quang
Team Leader

Dr. Nguyen Phu Binh
Collaborator

MSc. Tran Van Hoang
Member

Tools and Open Sources

Identifying antioxidant using Deep Learning
iProDNA-CapsNet: Identifying Protein-DNA Binding Residues using Capsule Neural Networks
iPseU-NCP: Identifying RNA Pseudouridine sites using Random Forest and NCP-encoded features
Minimum Inhibitory Concentration Prediction for Antibiotics towards Klebsiella Pneumoniae

Latest Publications

Publications in 2022

  1. Quang H. Nguyen, Binh P. Nguyen, Minh T. Nguyen, Matthew C. H. Chua, Trang T. T. Do, Nhung Nghiem. Bone age assessment and sex determination using transfer learning. Expert Systems with Applications. 1-11. 15/03/2022

Publications in 2021

  1. Loan Trinh Van, Quang H. Nguyen, and Thuy Dao Thi Le. Emotion Recognition with Capsule Neural Network. Computer Systems Science & Engineering. 1083-1098. 13/08/2021
  2. Wai Kin Koh, Quang H. Nguyen, Youheng Ou Yang, Tianma Xu, Binh P. Nguyen, and Matthew Chin Heng Chua. End-to-end Hand Rehabilitation System with Single-shot Gesture Classification for Stroke Patients. Biomedical and Related Applications. Studies in Computational Intelligence. 59-67. 17/06/2021
  3. Alysa Tan, Bryan Kwek, Kenneth Anthony, Vivian Teh, Yifan Yang, Quang H. Nguyen, Binh P. Nguyen, and Matthew Chin Heng Chua. Improving 3D Hand Pose Estimation with Synthetic RGB Image Enhancement using RetinexNet and Dehazing. Biomedical and Related Applications. Studies in Computational Intelligence. pp 93-105. 17/06/2021
  4. Nguyen Duc Thang, Nguyen Viet Dung, Tran Vinh Duc, Anh Nguyen, Quang H. Nguyen, Nguyen Tu Anh, Nguyen Ngoc Cuong, Le Tuan Linh, Bui My Hanh, Phan Huy Phu, Nguyen Hoang Phuong. Building a X-ray Database for Mammography on Vietnamese Patients and automatic Detecting ROI Using Mask-RCNN. AICI 2020,Soft Computing for Biomedical Applications and Related Topics,Studies in Computational Intelligence. 315-329. Hà Nội. 30/06/2020
  5. Tran V. Hoang and Nguyen H. Quang. iAnt: Combination of Convolutional Neural Network and Random Forest Models Using PSSM and BERT Features to Identify Antioxidant Proteins. Current Bioinformatics. 184 – 195. 13/07/2021
  6. Quang H. Nguyen, Binh P. Nguyen, Trung B. Nguyen, Trang T.T. Do, James F. Mbinta, Colin R. Simpson. Stacking segment-based CNN with SVM for recognition of atrial fibrillation from single-lead ECG recordings. Biomedical Signal Processing and Control. 1-6. 24/04/2021

Publications in 2020

  1. Kim Chwee Lim, Swee Heng Sin, Chien Wei Lee, Weng Khin Chin, Junliang Lin, Khang Nguyen, Quang H. Nguyen, Binh P. Nguyen, Matthew Chua. Video-based Skeletal Feature Extraction for Hand Gesture Recognition. Proceedings of the 4th International Conference on Machine Learning and Soft Computing (ICMLSC 2020). 108–112. Haiphong, Vietnam. 17/01/2020
  2. Đào Thị Lệ Thủy, Trịnh Văn Loan, Nguyễn Hồng Quang. Deep Convolutional Neural Network for Emotion Recognition of Vietnamese. International Journal of Machine Learning and Computing (IJMLC). 1000-1008. 30/07/2019
  3. Quang H. Nguyen, Ramasamy Muthuraman, Laxman Singh, Gopa Sen, Anh Cuong Tran, Binh P. Nguyen, Matthew Chua. Diabetic Retinopathy Detection using Deep Learning. Proceedings of The 4th International Conference on Machine Learning and Soft Computing. 103–107. Haiphong, Vietnam. 17/01/2020
  4. Cao Tuấn Dũng, Nguyễn Hồng Quang. An Approach for Building Effective Real Estate Chatbots in Vietnamese. AICI 2020,Soft Computing for Biomedical Applications and Related Topics,Studies in Computational Intelligence. 221-229. Hà nội. 30/06/2020
  5. Nguyễn Hồng Quang, Cao Tuấn Dũng. A Novel Method for Recognizing Vietnamese Voice Commands on Smartphones with Support Vector Machine and Convolutional Neural Networks. Hindawi Wireless Communications and Mobile Computing. 1-9. 01/03/2020
  6. Nguyen Hong Quang, Trinh Van Loan, Pham Quang Hien, Dao Thi Le Thuy, Nguyen Dinh Tu. BUIDING A CARDIOVASCULAR MONITORING AND WARNING SYSTEM. Tạp chí Khoa học và Công nghệ. 98-104. 05/09/2020
  7. Quang H. Nguyen and Quang V. Le. Ensemble of Deep Learning Models for In-Hospital Mortality Prediction. Advances in Engineering Research and Application Proceedings of the International Conference on Engineering Research and Applications, ICERA 2020, Lecture Notes in Networks and Systems Volume 178. 391-398. Thainguyen, Vietnam. 01/12/2020
  8. Quang H. Nguyen, Mengnan Gong, Tao Liu, Ou Yang Youheng, Binh P. Nguyen, and Matthew Chin Heng Chua. Ensemble of Convolutional Neural Networks for the Detection of Prostate Cancer in Multi-parametric MRI Scans. AICI 2020,Soft Computing for Biomedical Applications and Related Topics,Studies in Computational Intelligence. 231-241. 30/06/2020
  9. CHU BA THANH, TRINH VAN LOAN, NGUYEN HONG QUANG. Some new results on automatic identification of Vietnamese folk songs cheo and quanho. Journal of Computer Science and Cybernetics. 325-345. 14/12/2020