DANIEL BIVONA
New York
Summary
Bioinformatician with extensive experience at Columbia University, specializing in machine learning and data analysis. Optimized genetic analysis pipelines, resulting in improved data accuracy and reduced false positives. Skilled in Python and cloud computing, with a strong background in mentoring through teaching roles at the University of Chicago.
Overview
6
6
years of professional experience
Work History
Bioinformatician - Gharavi Lab
COLUMBIA UNIVERSITY
New York
11.2022 - Current
- Conducted Genome-Wide Association Studies (GWAS) on markers of ICA-PKD, FSGS, and Microbe Abundance.
- Established and optimized a machine-learning phasing-regression analysis pipeline to remove population bias from genetic data, significantly reducing noise and false positives in GWAS.
- Upscaled genetic analysis pipelines from desktop to cloud HPC architecture for analysis of genetic data.
- Maintained local IT infrastructure, including hardware upgrades, database management, RAID backups, and serverside tools.
Teaching Staff - Web Development & Discrete Math
UNIVERSITY OF CHICAGO
Chicago
01.2022 - 12.2023
- Held weekly office hours to mentor students through the full-stack debugging process, graded classwork, homework, tests, and projects
Graduate Student Intern
BLUE OCEAN GEAR
Remote
01.2022 - 03.2022
- Developed a web app for visualizing longitudinal location data from BOG's Smart-Buoy network.
- Constructed the framework for an anomaly and predictive movement pipeline incorporating ocean current and weather information fed from NOAA, DFO, and NASA's APIs.
- Integrated a web application with a batch analysis pipeline leveraging GPS and environmental data, applying Random Forest and K-Nearest Neighbors models to enable early detection of significant buoy drift events.
Microbiology Undergraduate Research Assistant - Mimee Lab
UNIVERSITY OF CHICAGO
Chicago
01.2020 - 06.2020
- Led computational metagenomic analysis on human flora using HMP samples to drive in-vivo development of a model microbiome in mice.
Immunology and Radiology Research Intern - Mulder Lab
MOUNT SINAI SCHOOL OF MEDICINE
New York
06.2019 - 09.2019
- Synthesized, and characterized nano-biologics for in vivo and in vitro studies with team.
- Collected, processed, and purified mouse hematopoietic tissue for flow cytometry.
- Performed synthesis and characterization of Hydroxychloroquine nano-biologics.
Education
Master's Degree - Comp Sci
UNIVERSITY OF CHICAGO
CHICAGO, IL01.2022
Bachelor's Degree - Biology
UNIVERSITY OF CHICAGO
CHICAGO, IL01.2020
Skills
- Python and R
- Machine learning and data analysis
- Cloud computing and services
- Data visualization techniques
- Research methodologies
- Pandas, NumPy, and Sci-kit
- Pytorch and TensorFlow
- Web development (HTML, CSS, JavaScript)
- React and TypeScript
- SQL database management
- Bash scripting and automation
- Hadoop ecosystem (Hive, Spark)
- AWS Lambda and cloud functions
- Linux and Unix systems
- Version control (Git, GitHub)
- Assembly language programming
- Distributed systems (Raft, Slurm, SGE)
Papers
- 2021, Embracing Nanomaterials' Interactions With the Innate Immune System., Wiley Interdisciplinary Reviews Nanomedicine and Nanobiotechnology, 13, 6, https://doi.org/10.1002/wnan.1719
- 2023, Strong protective effect of the APOL1 p.N264K variant against G2-associated focal segmental glomerulosclerosis and kidney disease., Nat Commun, 14, 7836, https://doi.org/10.1038/s41467-023-43020-9
Timeline
Bioinformatician - Gharavi Lab
COLUMBIA UNIVERSITY
11.2022 - Current
Teaching Staff - Web Development & Discrete Math
UNIVERSITY OF CHICAGO
01.2022 - 12.2023
Graduate Student Intern
BLUE OCEAN GEAR
01.2022 - 03.2022
Microbiology Undergraduate Research Assistant - Mimee Lab
UNIVERSITY OF CHICAGO
01.2020 - 06.2020
Immunology and Radiology Research Intern - Mulder Lab
MOUNT SINAI SCHOOL OF MEDICINE
06.2019 - 09.2019
Master's Degree - Comp Sci
UNIVERSITY OF CHICAGO
Bachelor's Degree - Biology
UNIVERSITY OF CHICAGO
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