🏠Address: Chongqing, China
🏢Office: Paul Hall 309, Tulane University
📫E-mail: me@jiarui.li
🔗Github: https://github.com/jiarui0923/
🔗Linkedin: https://www.linkedin.com/in/li-jiarui/
📝Resume: http://resume.jiarui.li
💠Education
| 🎓 Doctorate | ||
|
Tulane University Ph.D Student in Computer Science Research Field: Bioinformatics and Immunoinformatics |
Louisiana, US Sept. 2023 - Present |
| 🎓 Bachelor | ||
|
University of Nottingham Ningbo China BSc Hons Computer Science with Artificial Intelligence First Class with Honors |
Zhejiang, China Sept. 2019 - Jun. 2023 |
|
University of Birmingham UG Aff Computer Science with Software Engineering Average Score 92 (Exchange Program) |
Birmingham, UK Sept. 2020 - Jun. 2021 |
💠Publications
Conference Proceedings
- 📰 Li, J., Landry, S., & Mettu, R. (2024, December). GPU Acceleration of Conformational Stability Computation for CD4+ T-cell Epitope Prediction. In 2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) (Accepted). IEEE.
- 📰 Li, J., Landry, S., & Mettu, R. (2024, October). GPU Acceleration for Markov Chain Monte Carlo sampling. In Proceedings of the Fourth International Conference on AI-ML Systems (Accepted). ACM.
- 📰 Li, J., Ji, R., Yang, X., Li, J., Li, Y., Xiong, X., … & Cui, T. (2023, December). Prediction of Flight Arrival Delay Time Using US Bureau of Transportation Statistics. In 2023 IEEE Symposium Series on Computational Intelligence (SSCI) (pp. 603-608). IEEE.
- 📰 Ji, R., Li, J., He, W., Ren, J., & Jiang, X. (2023, June). Dual-Stream Siamese Vision Transformer With Mutual Attention For Radar Gait Verification. In ICASSP 2023-2023 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP) (pp. 1-5). IEEE.
Conference Orals
- 📰 Li, J., Landry, S., & Mettu, R. (2024, June). GPU Acceleration of Conformational Stability Computation for CD4+ T Cell Epitope Prediction. In Next Gen. Conversations: Albany at Tech 2024: The 21st Conversation. Albany.
💠Grant & Funding
| Year | Grant | Authority | Amount |
|---|---|---|---|
| 2024 | 🏅AWS Public Sector Cloud Credit for Research | Amazon AWS | $4,984.00 |
💠Awards
| Year | Award | Authority | Location |
|---|---|---|---|
| 2023 | 🏆Tulane Ph.D. Funding | Tulane University | Louisiana, US |
| 2023 | 🏆Zhejiang Excellent Graduates | Zhejiang Provincial Government | Zhejiang, China |
| 2022 | 🏆Best Performer | University of Nottingham Ningbo China | Zhejiang, China |
| 2022 | 🏆President’s Scholarship | University of Nottingham Ningbo China | Zhejiang, China |
| 2022 | 🏆Zhejiang Provincial Scholarship | Zhejiang Provincial Government | Zhejiang, China |
| 2021 | 🏆Provost’s Scholarship | University of Nottingham Ningbo China | Zhejiang, China |
| 2021 | 🏆Government Scholarship for Mobility Out | Ningbo Municipal Government | Zhejiang, China |
| 2020 | 🏆Outstanding Staff | UNNC Science and Technology Student Association | Zhejiang, China |
💠Experiences
Work Experiences
🗃️ Computer Science Department, Tulane University
Teaching Assistant
New Orleans, LA, US
Aug 2024 - Present
- TA for CMPS 2200 Introduction to Algorithm.
Research Assistant
New Orleans, LA, US
Aug 2023 - Aug 2024
- Optimize MHC-II Pepitide Binding Prediction Algorithm
- Develop And Design CUDA Based High Performance Computation Platform
- Develop Web Server for MHC-II Pepitide Binding Prediction Pipeline.
🗃️ Shanghai Institution of Materia Medica, China Academy of Science
Internship
Shanghai, China
June 2023 ‑ July 2023
- Learned experiments including Western Blot, Cell Formation Assay, and Protein quantitative analysis.
- Researched SOS‑1 and SHP‑2 inhibitors
Research Experiences
🔬 T-Cell Receptor (TCR) Modeling
New Orleans, LA, US
July 2024 - Present
- Utilizing deep learning models to model TCRs.
- Model TCR sequence to epitope groups.
🔬 COREX Optimization
Computer Science, Tulane University of Louisiana
New Orleans, LA, US
Aug 2023 - Present
- Optimize COREX/BEST algorithm strcuture.
- Accelerate algorithm based on GPU platform.
- Design GUI for COREX Algorithm.
- Design new sampling algorithm for microstates sampling.
🔬 IC50 Prediction of SOS‑1 and SHP‑2 Inhibitor
Shanghai Institution of Materia Medica & University of Nottingham Ningbo China
Shanghai, China
Sept 2022 ‑ Jan 2023
- Designed a new evaluation method for algorithms.
- Designed a multi‑stage algorithm for IC50 prediction and surpassed the STOA.
- Designed Graph Neural Networks and Transformer for IC50 prediction.
🔬 Machine Learning Based Radar Gait Verification
University of Nottingham Ningbo China
Zhejiang, China
Sept 2022 ‑ Jan 2023
- Designed a Siamese vision transformer with mutual attention.
- Designed a mutual attention fusion machenism.
- Designed a time and frequency embedding method for signal processing.
🔬 Artificial Intelligence Based Drug Discovery Cloud Platform Provincial Grant Application
University of Nottingham Ningbo China
Zhejiang, China
July 2021 ‑ Sept 2021
- Designed the architecture of the cloud platform.
- Designed the core algorithm for structure‑activity prediction.
🔬 Enantiomeric Excess Prediction with Machine Learning
University of Nottingham Ningbo China
Zhejiang, China
July 2021 ‑ May 2023
- Analyzed the features of a dataset for asymmetric catalysis containing the quantum data for both substrates and catalysts.
- Designed a dual stream mutual attention transformer to predict the enantiomeric excess.
- Designed an attention U‑Net to predict the enantiomeric excess.
- Created co‑matrices for all the substances to ensure recognizable structure and model improvement.
🔬 Vehicle Detection on Drone Captured Images
University of Nottingham Ningbo China
Zhejiang, China
Jan 2021 ‑ July 2021
- Transplanted Yolo‑v5 to the dataset and improved its loss function to achieve better performance than STOA.
- Studied models such as RCNN/YOLO family and model improvement methods from Efficient‑Net.
🔬 MRI Image Tumor Segmentation
University of Nottingham Ningbo China
Zhejiang, China
Sept 2020 ‑ Dec 2020
- Evaluated the datasets, including CORN, VETO, MMM‑21, and ROSE, by reading related papers for research potential.
- Created models such as U‑Net and U‑Net++ for object detection and segmentation on medical images with PyTorch or TensorFlow.
Project Experiences
🛠️ Artificial Intelligence Aided Drug Discovery Cloud Platform
University of Nottingham Ningbo China
Zhejiang, China
Jan 2022 ‑ June 2022
- Implemented fast access on million data based on MongoDB and Redis
- Designed the model flow structure and implemented basic REST‑API.
- Designed the front‑end of the platform.
🛠️ Flight Foresight
University of Nottingham Ningbo China
Zhejiang, China
Apr 2022 ‑ May 2022
- Built aircraft delay prediction model utilizing Spark.
- Designed front‑end for the software.
🛠️ X-Room
University of Nottingham Ningbo China
Zhejiang, China
March 2022 ‑ May 2022
- Utilized YOLOv8 for lecturer tracking and super resolution.
- Created flow model to allow automatic parallel.
- Implemented optical character recognition and automatic note.
🛠️ HirePrep
University of Birmingham
Birmingham, UK
Jan 2022 ‑ May 2022
- Designed and implemented REST API, voice control
- Designed user interface appearance and animation.
- Utilized the APIs of GPT‑3 from OPENAI to generate interview questions and evaluate the answers from users.
💠Skills
Techniqual
- 🗜️ Programming: C/C++, Java, C#, Python, PHP, JavaScript, Assembly(MIPS), Haskell, VB.net, CUDA
- 🗜️ Database: MySQL, SQLite, MongoDB, Redis
- 🗜️ Web:
- Front-end: HTML, CSS, Bulma, Tailwind, JavaScript, JQuery
- Back-end: Django, Flask, IIS, Apache HTTP, Docker, Nginx
- Internet Service Maintenance: Rocket Chat, OpenVPN, Poste.io
- 🗜️ Algorithm:
- Machine Learning: Pytorch, PyG, TensorFlow, Pandas, Numpy, scikit‑learn, scipy, Numba
- Big Data: Hadoop, Spark
- Visualization: Matplotlib, Plotly, Streamlit, 3DMol.js
- 🗜️ Documentation: LaTeX, Markdown, Swagger, Overleaf
- 🗜️ Hardward: Arduino, Raspberry Pi, STM32, Digital Logical Circuit
- 🗜️ Environment: Git, Anaconda
- 🗜️ Cheminformatics & Bioinformatics: RDKit, Vina Docking, ChemDraw, DeepChem, BioPDB, Biotite
- 🎵 Musical Instrument: Guqin (Traditional Chinese String Instrument)
Languages
- 📓 Chinese Native proficiency
- 📓 Mandarin
- 📓 Chongqing Dialect I am a Chongqing citizen definetely.
- 📓 English Professional proficiency
- 📓 French Loyal Duolingo user
This post is written by Jiarui LI, licensed under CC BY-NC 4.0.