RONNIE LI'S PORTFOLIO
  • Home
  • Art
  • Writing
    • Grade 11 Poetry
    • Grade 12 Poetry
    • College Poetry
    • The Rest
    • Prose
  • Research
  • Songs
  • Tourette
  • Teaching
    • NEUR0010
    • Private Tutoring
    • Testimonials
  • Contact

Curiosity cured the cat.

Picture
GitHub
Picture
Open researcher ID
Picture
Google Scholar

Virginia Commonwealth University (VCU)

I started in January 2025 as a Bioinformatics Research Scientist in the VCU School of Medicine: Stravitz-Sanyal Institute for Liver Disease and Metabolic Health.

​​Some of my projects include:
  • Identifying key Farnesoid X Receptor (FXR) target genes using publicly available ChIP-seq and transcriptomic data.
 
  • Identifying genetic drivers of biliary atresia (BA) using whole-exome sequencing.
 
  • Characterizing the effect of Pkd1l1 gene knockout in cholangiocyte cell culture and organoids using RNA-seq.
 
  • Meta-analyses of risk allele frequency in genes associated with metabolic dysfunction-associated steatotic liver disease (MASLD).
Picture
VCU Stravitz-Sanyal

Emory University (Ph.D. research)

My dissertation research was done in the lab of Dr. Zhaohui "Steve" Qin in the Department of Biostatistics and Bioinformatics. It revolved around bioinformatics and genomic data science​, in particular, the following projects:
  • Using machine learning (ML) to identify pleiotropic expression quantitative trait loci (eQTLs) in multiple tissues and exons (multi-phenotype association tests).
 
  • Leveraging tissue- and tumor-specific CpG sites to identify a tumor's tissue of origin given its DNA methylation profile.
 
  • Identifying risk variants and genetic drivers of cystic fibrosis with liver disease
 
  • Determining genetic drivers of motor neuron susceptibility in amyotrophic lateral sclerosis (ALS).
​
  • Analyzing various methods used to characterize marker genes in single-cell RNA-sequencing data

I enrolled in Emory University's Neuroscience Graduate Program in the summer of 2017 and graduated in December 2024. All students are required to complete at least three "rotation" projects in different labs.

For my first rotation project, I worked under Dr. Chad Hales in the Center for Neurodegenerative Disease investigating the aggregation properties of certain candidate proteins in post-mortem cases of frontotemporal dementia (FTD). FTD is a neurodegenerative disorder. We conducted an extensive literature review on a proteomic dataset to determine which proteins warranted further investigation.

For my second rotation project, I worked under Dr. Brad Pearce in the Department of Epidemiology investigating sex differences in physiological predictors of aggression. I was tasked with taking an MPH thesis and condensing it into a publishable manuscript. The thesis project looked at how changes in fear-potentiated acoustic startle, resting heart rate, and heart rate variability were correlated with self-reported aggression scores.
​
For my third rotation project, I worked under Dr. Jennifer Mulle and Dr. Joseph Cubells in the Department of Human Genetics investigating the neuronal phenotype of a rare chromosomal microdeletion called the 3q29 deletion syndrome. This deletion of 22 protein-coding genes on the long arm of chromosome 3 is considered a copy number variant and confers a 40-fold increased risk for schizophrenia and is associated with other cognitive phenotypes.
Picture
Dr. Qin's faculty profile
Picture
Dr. Hales' lab webpage
Picture
Emory Neuroscience Graduate Program

High school and college research

Yale University

In the summer of 2010, I worked at Yale University's Child Study Center under the supervision of Dr. Yuko Kataoka and Dr. Flora Vaccarino, the Principal Investigator, on a project on my own condition, Tourette Syndrome. I learned immunohistochemistry as well as a bit of stereology. My findings became incorporated into a larger study (a transcriptome analysis) that was published in 2016, and I was a co-author on the paper. You can check it out here.
Picture
Dr. Vaccarino's laboratory

UC Davis Medical Center

In the summer of 2012, I was an Edmondson Research Fellow at the UC Davis Medical Center working under Dr. Josh Miller and Dr. Ralph Green, the Principal Investigator, on a project on homocysteine in Alzheimer's disease. I learned about one-carbon metabolism and how to use high pressure liquid chromatography (HPLC). I attempted to correlate homocysteine measurements to Alzheimer's disease and dementia progression in my project.
Picture
The Hugh Edmondson internship program

The Feinstein Institute for Medical Research

In the summer of 2015, I worked at The Feinstein Institute for Medical Research under the supervision of Dr. Eric Chang. I used image analysis software to compare DTI (diffusion tensor imaging) white matter integrity to labeled fiber tracts in CLARITY whole brains. CLARITY is a relatively new technique that allows the investigator to make the mouse brain transparent, and it allows for greater resolution imaging and for molecular phenotyping of neuronal circuits. I was a co-author on the conference abstract.
Picture
The Feinstein Institute for Medical Research

Side Projects

Democratic vs. Republican leadership

I wanted to examine whether Democratic or Republican presidencies were better for the economy. Here's what I found!
DemRep.pdf
File Size: 300 kb
File Type: pdf
Download File

  • Home
  • Art
  • Writing
    • Grade 11 Poetry
    • Grade 12 Poetry
    • College Poetry
    • The Rest
    • Prose
  • Research
  • Songs
  • Tourette
  • Teaching
    • NEUR0010
    • Private Tutoring
    • Testimonials
  • Contact