Uttam Kumar

Computer science

Hometown: Samastipur, Bihar, India

Graduation date: Spring 2025

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MORE | Spring 2024

Towards Automated Selection of Embedding Models: Identifying the Optimal Parameters for the Baseline Model for TCR Embedding

Analyzing T cell receptor (TCR)-epitope interactions is crucial for identifying therapeutic targets for diseases. TCR clustering illuminates the landscape of clonal expansion, offering potential targets for intervention. Additionally, TCR-epitope binding affinity prediction is instrumental in screening cognate TCRs for combating harmful antigens. Recent advancements, particularly catELMo, have emphasized the significance of effective embeddings in enhancing TCR-related tasks. Despite catELMo’s success, the underlying mechanisms remain elusive. This proposal outlines a large-scale comparative study on TCR embeddings, focusing on optimizing parameters for catELMo, such as learning rate, batch size, and training epochs. Notably, the current leading embedding model, based on bidirectional Long Short-Term Memory (biLSTM), outperforms transformer-based models in prediction tasks. To understand why catELMo performs well, we carry out a large-scale comparative study on TCR embeddings. Because the scale of the entire study is large, the focus will be research on finding the optimal parameters for the baseline model.

Mentor: Heewook Lee

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More projects from the current symposium

William Boutin

Mechanical engineering

Advancing the Semiconductor Industry through the Development of a Miniaturized Reinforced Mixed-Mode Bending Apparatus (MRMMB) with Out-Of-Plane Shear Mode Consideration, Initially Invented at Arizona State University

The inclusion of mode III characterization offers a valuable opportunity to enhance our comprehension of component and system failures.

Mentor: Masoud Yekani Fard

Program: FURI

Lakshmi Jayant

Materials science and engineering

Additive Manufacturing of Polymer-based Lithium Salt Electrolyte with Enhanced Physical Properties towards High-Performance Lithium-Ion Batteries

Investigation of the mechanical and electrochemical properties of 3D-printed lithium salt electrolytes to integrate them with silicon anodes.

Mentor: Xiangjia Li

Program: MORE

Alma Samuel Babbitt

Computer systems engineering

Verification Code Generation in the Hardware Description Language Verilog

Using large language models for verification code generation in Verilog for integrated circuit designs will shorten testing and remove roadblocks.

Mentor: Nakul Gopalan