Computational Biology

EMILY SUN *****@**.***

LinkedIn: emilyqs

EXPERIENCE

Machine Learning Research Assistant JUN 2023-AUG 2024 Boston University

• Trained a commonly used checkpoint of Meta’s Segment Anything Model on kidney biopsy images annotated by pathologists, as well as computationally augmented images.

• Developed an interactive web application integrating Django and React for executing machine learning models, designed for use by clinicians for diagnostics.

• Highlights cortex area and cortex percentage relative to the entire biopsy to provide critical insights for medical diagnostics and research.

• Evaluate the model’s performance used a 5-fold cross-validation and common image segmentation metrics such as Intersection over Union (IoU) and Dice Similarity Coefficient compared real segmentation results provided by pathologists.

• Research findings are published in Kidney International Reports. https://doi.org/10.1016/j.ekir.2024.06.019

Laboratory Assistant OCT 2023-JUN 2024

AI Proteins

• Supported the Bioprocess Development team in conducting wet lab experiments and maintaining laboratory equipment.

• Contributed to a protein constellation project using SQL to find surface markers by identifying pairs of differentially co-expressed genes between normal and cancer cell membranes

Spatial Transcriptomics Research Assistant SEP 2021-JUN 2022 Boston University School of Medicine

• Researched methods in geographic information systems (GIS) to identify and adapt methodologies for the Giotto package for spatial transcriptomics

• Found functions from R-Terra to estimate cell type abundance at specific tissue locations and perform colocalization analysis.

EDUCATION

Boston University SEP 2021-AUG 2024

• B.A. Mathematics and Computer Science

• Minor: Engineering Science - Biomedical Engineering

• Relevant Coursework: Statistics, Combinatorics, Computer Systems, Graph Theory, Linear Algebra, Differential Equations, Electrical Circuits, Cell Biology and Biotechnology, Software Engineering, Probability, Algorithms, Data Science, Biomedical Signals and Controls, Abstract Algebra, Theory of Computation, Stochastic Processes SKILLS AND AWARDS

Skills

• Programming Languages: SQL, Java, C, C++, Python, R, OCaml, MATLAB, JavaScript

• Tools: Git, PyTorch, Matplotlib, React, Django, Tophat, Cufflinks, Bioconductor

• Data Science: deep learning, regression, data visualization, network analysis Awards

• UROP (Undergraduate Research Opportunities Program) funding

• U.S.A. Computing Olympiad Bronze and Silver

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