About Me
I am Tao Yang, a master’s student in Bioinformatics at Tongji University, Shanghai, China. I work in the Zhang Lab, School of Life Sciences and Technology, under the joint supervision of Prof. Menghuan Zhang and Prof. Yong Zhang. I received my B.S. degree in Computer Science and Technology from Shanghai Ocean University in 2024.
My research focuses on computational biology, with an emphasis on functional phosphorylation site prediction, protein localization, and transcription factor regulation. I am particularly interested in developing machine learning methods that integrate protein sequence, structural, and multi-omics information to study how post-translational modifications contribute to biological regulation.
Research Summary
I am currently developing PhosLoc Transport, a computational framework for predicting phosphorylation sites associated with transcription factor nuclear-cytoplasmic localization regulation.
The project focuses on two related questions: whether a transcription factor phosphosite is likely to be involved in localization regulation, and whether the site is more likely to be associated with nuclear accumulation or cytoplasmic redistribution. The framework combines protein language model representations, structure-derived features, supervised learning, and cancer multi-omics analysis to connect phosphosite-level predictions with downstream regulatory effects.
More details are available on the Projects page and in the GitHub repository.
Background
My undergraduate training in Computer Science provided a foundation in programming, algorithm design, and machine learning. In my current research, I aim to apply these computational skills to biological questions involving protein regulation, post-translational modifications, and disease-related molecular mechanisms.
Research Interests
- Functional phosphorylation site prediction
- Protein localization and nuclear-cytoplasmic transport
- Transcription factor regulation
- Post-translational modification analysis
- Protein language models and structural bioinformatics
- Cancer multi-omics analysis
Technical Skills
- Programming and tools: Python, Linux, Git, Conda, pandas, NumPy, scikit-learn, Matplotlib
- Machine learning and bioinformatics modeling: PyTorch, PyTorch Geometric, XGBoost, protein language model features, graph neural networks, feature engineering, cross validation, model evaluation
Education
M.S. in Bioinformatics
Tongji University, 2024 to present
Zhang Lab, School of Life Sciences and Technology
Supervisors: Prof. Menghuan Zhang and Prof. Yong Zhang
B.S. in Computer Science and Technology
Shanghai Ocean University, 2020 to 2024
News
- 2024.09: Started my M.S. study in Bioinformatics at Tongji University and joined the Zhang Lab.
- 2024.06: Received my B.S. degree in Computer Science and Technology from Shanghai Ocean University.
Contact
Email: taoyysc@gmail.com
GitHub: TaoYySC