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jlelia/README.md

James L. Elia

Pathology and Molecular Medicine PhD Candidate @ Yale University

I am a cancer biologist turned computational researcher focused on creating therapeutics for cancers with specific DNA repair defects in the Bindra Lab. Currently defending my dissertation in June 2026, I am transitioning from the wet lab to building software and ML models that accelerate drug discovery.


πŸ‘¨β€πŸ”¬ About Me

  • 🧬 Current Work: I'm writing up my PhD dissertation where I developed novel therapeutics targeting tumor-specific DNA repair deficiencies and built open-source software like CellPyAbility and crispy_snake.
  • 🌱 Learning: I'm building expertise in Machine Learning and Deep Learning applications in cell biology and medicine.
  • πŸ₯‹ Fun Facts: I competed nationally in powerlifting, have a brown belt in judo, and ran two ultramarathons. When I'm not working or exercising, I'm likely playing video games or reading!

πŸ’» Computational Toolkit

Languages

Data Science

Engineering & Scale


πŸ’‘ Featured Projects

Project Description Built With Link to Website
CellPyAbility Python package automating nuclei segmentation and dose-response analysis for high-throughput drug screens. Python CellProfiler Pandas NumPy SciPy Plotly PyInstaller PyPI Bioconda πŸ”¬
Aesthetic Selection AI at Yale Symposium exhibit where attendees applied selection pressure in real-time to a diffusion model through iterative voting cycles. Python Slurm PyTorch diffusers transformers accelerate Matplotlib πŸ–ΌοΈ
crispy_snake Automated CRISPR screen processing and analysis pipeline using Snakemake for accessible configuration and optimized HPC performance. Python Snakemake FastQC Pandas NumPy MAGeCK DrugZ Matplotlib 🐍

πŸ“ Latest Blog Posts


πŸ“« Connect with Me

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  1. bindralab/CellPyAbility bindralab/CellPyAbility Public

    Software for the automated analysis of in cellulo high-throughput drug screening

    Python 7 1

  2. bindralab/crispy_snake bindralab/crispy_snake Public

    A Snakemake pipeline for CRISPR screen sequencing analysis

    Python 2

  3. aesthetic_selection aesthetic_selection Public

    A project for the Envisioning AI at Yale Symposium where Stable Diffusion is used to generate images, which are then voted upon and reworked into increasingly pleasing images.

    Python 2

  4. website website Public

    A repo for my personal website: https://jlelia.net

    HTML