UnJin Lee

University of Chicago Ph.D. Candidate

Committee on Genetics, Genomics, and Systems Biology
BA: Physics, University of Chicago 2013

Publications

Geometric Structure and Geodesic in a Solvable Model of Nonequilibrium Processmore_vert
Geometric Structure and Geodesic in a Solvable Model of Nonequilibrium Processclose

We investigate the geometric structure of a nonequilibrium process and its geodesic solutions. By employing an exactly solvable model of a driven dissipative system (generalized nonautonomous Ornstein-Uhlenbeck process), we compute the time-dependent probability density functions (PDFs) and investigate the evolution of this system in a statistical metric space where the distance between two points (the so-called information length) quantifies the change in information along a trajectory of the PDFs.

Noise-Driven Phenotypic Heterogeneity with Finite Correlation Time in Clonal Populationsmore_vert
Noise-Driven Phenotypic Heterogeneity with Finite Correlation Time in Clonal Populationsclose

There has been increasing awareness in the wider biological community of the role of clonal phenotypic heterogeneity in playing key roles in phenomena such as cellular bet-hedging and decision making, as in the case of the phage-λ lysis/lysogeny and B. Subtilis competence/vegetative pathways. Here, we report on the effect of stochasticity in growth rate, cellular memory/intermittency, and its relation to phenotypic heterogeneity.

A Prognostic Gene Signature for Metastasis-Free Survival of Triple Negative Breast Cancer Patientsmore_vert
A Prognostic Gene Signature for Metastasis-Free Survival of Triple Negative Breast Cancer Patientsclose

The application of gene expression array technology to breast cancer has emphasized the heterogeneity of this disease and also provided new tools to classify breast cancers into subtypes based on gene expression patterns. Ideally each subtype would reflect distinct molecular characteristics corresponding to discrete cancer phenotypes. This information could be used to gain prognostic insight and, eventually, to predict response to therapy.

Achievements

Awards & Honors
  • NIH T32 Gene Regulation Training Grant Recipient
  • NSF GRFP Honorable Mention 2016
  • Odyssey Scholar
  • National Merit Scholar
Academic Service Activities
  • Co-Host Groks Science Show Podcast
  • Co-Host Groks Science Show Radio Hour WHPK 88.5FM
  • Genetics Science Connections at the Museum of Science and Industry
  • American Association for the Advancement of Science Member
Experimental Techniques, Expertise
  • Stochastic Differential Equations
  • Applied Numerical Optimization
  • Monte Carlo Methods
  • Gene Expression Analysis
  • Survival Analysis
  • Statistical Modeling
  • Chromosomal Confirmation Capture (4C)
  • Enhancer-Reporter Assays
  • Phylogenetic Analysis
  • Cloning
Presentations
  • 2013 Undergraduate Symposium of the American Association of Cancer Researchers (Poster)
  • 2013 University of Chicago (Poster) Undergraduate Research Symposium
  • 2016 Aspen Center for Physics Winter Conference on Evolution, Populations, and Physics (Poster)
Software
Scientific Software
  • sigsquared (c.f. Lee and Frankenberger et al 2013/R/S4)
  • Deterministic Runge Kutta Solvers (1st-4th order/C++)
  • Stochastic Runge Kutta Solvers (Honeycutt with Finite Correlation Time/C++)
  • Gillespie Stochastic Simulation Algorithm (First Reaction method/C++)
  • Genetic Algorithm (C++)
  • Downhill Simplex using LASSO (Java)
Languages
  • R (S3/S4)
  • MATLAB
  • C++
  • Java
  • bash