Experience

NewLimit

• United States
• Biotechnology Research
• 1 - 100 Employee

• Machine Learning Scientist

  • Jan 2023 - 1 year

  South San Francisco, California, United States Machine learning models for epigenetic partial reprogramming.



University of California, Santa Cruz

• United States
• Higher Education
• 700 & Above Employee

• Doctoral Student

  • Sep 2018 - Dec 2022

  Santa Cruz Thesis on integrating prior biological knowledge and machine learning for single-cell data analysis My graduate work spanned the automated annotation of single-cell using cell type marker gene sets, the creation of an interpretable deep generative model to infer pathway activity in single-cell and perform differential pathway activity analysis, and using such models for in-sillico perturbation analysis. I also contributed to a framework to generalize drug response prediction from… Show more Thesis on integrating prior biological knowledge and machine learning for single-cell data analysis My graduate work spanned the automated annotation of single-cell using cell type marker gene sets, the creation of an interpretable deep generative model to infer pathway activity in single-cell and perform differential pathway activity analysis, and using such models for in-sillico perturbation analysis. I also contributed to a framework to generalize drug response prediction from cell lines to cancer patient using graph convolutional networks and domain adaptation (with Ioannis Anastopoulos)

• Teaching Assistant

  • Mar 2020 - Jun 2020

  Santa Cruz, California, United States Advanced Computational Genomics



CoralGx

• United States
• Biotechnology Research

• ML Data Analyst

  • Jun 2021 - Sep 2021

  San Francisco Bay Area Building deep learning models for PRS prediction and contributing to building a novel sparse data format for petabyte genomics data storage and scalable machine learning applications (DNARecords).

• Teaching Assistant

  • Mar 2019 - Jun 2019

  Santa Cruz, California, United States Advanced Computational Genomics



UC Santa Cruz Genomics Institute

• United States
• Research Services
• 1 - 100 Employee

• Visiting Scholar

  • Feb 2018 - Aug 2018

  Santa Cruz, California, États-Unis Single-cell transcriptomics data analysis: Clustering, data visualization, inference of dynamic processes in scRNA-seq data. My work included methods comparison, data analysis and visualization, as well as creating new models to infer cell lineages (Python, R). This project was part of two larger scale projects funded by the California Institute of Regenerative Medicine (CIRM's Genomics Initiative) and the Chan-Zuckerberg Initiative (Human Cell Atlas), which required coordination with… Show more Single-cell transcriptomics data analysis: Clustering, data visualization, inference of dynamic processes in scRNA-seq data. My work included methods comparison, data analysis and visualization, as well as creating new models to infer cell lineages (Python, R). This project was part of two larger scale projects funded by the California Institute of Regenerative Medicine (CIRM's Genomics Initiative) and the Chan-Zuckerberg Initiative (Human Cell Atlas), which required coordination with teams across the US and the rest of the world, as well as participating in progress meetings regularly. Show less



INSERM

• France
• Research Services
• 700 & Above Employee

• Trainee

  • Nov 2017 - Dec 2017

  Strasbourg Area, France Working in the MN3T team at Inserm U1109, on the tumor microenvironment. I was involved in the analysis of RNAseq data to explore differential isoform expression, which allowed me to develop my bioinformatics and programming skills (R (Ballgown), Python, HISAT2, StringTie)



Academia Sinica, Taiwan

• Taiwan
• Higher Education
• 700 & Above Employee

• Trainee

  • Jun 2017 - Aug 2017

  Taipei City, Taiwan Trainee at Institute of Molecular Biology, Academia Sinica. Telomere Biology and Telomere Diseases Team (Dr. Liuh-Yow Chen) Estimation of telomere length from WGS data using qMotif and other bioinformatics tools. Data analysis using Python.



iCellate Medical AB

• Sweden
• Medical and Diagnostic Laboratories
• 1 - 100 Employee

• Trainee

  • May 2016 - Sep 2016

  Stockholm, Suède Circulating Tumor Cells enrichment for downstream analysis and cancer diagnostic/prognostic. Single-cell sequencing protocols and optimization of working protocols.



E. Leclerc

• France
• Retail Groceries
• 1 - 100 Employee

• Order Picker

  • Aug 2015 - Aug 2015

  Saint-Brice-Courcelles Order picker for E.LECLERC DRIVE

• Order Picker

  • Aug 2014 - Aug 2014

  Saint-Brice-Courcelles Order picker for E.LECLERC DRIVE



Groupe Coopératif Maïsadour

• France
• Farming
• 200 - 300 Employee

• Laborer

  • Jul 2013 - Aug 2013

  Mont-de-Marsan Corn fecondation in fields