J. T. George

RACER-m Leverages Structural Features for Sparse T Cell Specificity Prediction

RACER-m predicts T cell specificity using structural features, requiring fewer training examples than sequence-based methods.

Optimal Cellular Phenotypic Adaptation in Fluctuating Environments

This paper develops a stochastic model to show how cellular memory capacity affects phenotypic adaptation in fluctuating environments, finding that larger memory reduces nutrient availability but avoids maladaptive penalties.

Population Dynamics of EMT Elucidates the Timing and Distribution of Phenotypic Intra-tumoral Heterogeneity

This paper develops a computational framework to infer and predict EMT-related trajectories from single-cell RNA sequencing data, revealing population dynamics and timing of phenotypic intra-tumoral heterogeneity.

Epigenetic memory acquired during long-term EMTinduction governs the recovery to the epithelial state

The paper shows that long-term EMT induction in MCF10A cells can be reversible with longer timescales, and epigenetic memory via miR-200 silencing by ZEB slows recovery to the epithelial state.

Optimal Cancer Evasion in a Dynamic Immune Microenvironment

This paper develops a mathematical framework to model optimal cancer evasion strategies in a dynamic immune microenvironment, showing that adaptive evasion leads to heterogeneous tumor antigenicity.

Gene expression profiles of inflammatory breast cancer reveal high heterogeneity across the epithelial-hybrid-mesenchymal spectrum

The paper evaluates gene expression signatures for inflammatory breast cancer (IBC) across multiple datasets, finding low overlap and limited predictive accuracy, but identifying a correlation between IBC samples and the epithelial-hybrid-mesenchymal spectrum.

Rapid Assessment of T-Cell Receptor Specificity of the Immune Repertoire

This paper introduces RACER, a pairwise energy model that assesses TCR-peptide affinity using supervised machine learning, demonstrating its utility in simulating thymic selection and estimating recognition rates for tumor antigens.

Comparative study of transcriptomics-based scoring metrics for the epithelial-hybrid-mesenchymal spectrum

This study compares three transcriptomics-based metrics for quantifying EMT status across tumor types, finding that MLR-based scoring better distinguishes pure hybrid E/M cells from mixed populations.

TUTase mediated site-directed access to clickable chromatin employing CRISPR-dCas9

This paper develops sgRNA-Click (sgR-CLK), a method to site-directly display synthetic molecules on chromatin using CRISPR-dCas9 and bioorthogonal click chemistry.

Targeting the Id1-Kif11-Aurka axis in triple negative breast cancer using combination therapy

This paper investigates how Id1 and Id3 maintain chemoresistant CSCs in TNBC by targeting Kif11 and Aurka, and explores combination therapy to enhance tumor debulking.

Sustained Co-evolution in a Stochastic Model of the Cancer-Immune Interaction

This paper develops a stochastic model of cancer-immune interactions showing immune pressure influences cancer incidence and escape.

NRF2 activates a partial Epithelial-Mesenchymal Transition and is maximally present in a hybrid Epithelial/Mesenchymal phenotype

This study shows NRF2 stabilizes a hybrid epithelial/mesenchymal phenotype by upregulating both E-cadherin and ZEB, and correlates this phenotype with poor survival in cancer.

E-cadherin represses anchorage-independent growth in sarcomas through both signaling and mechanical mechanisms

This study identifies E-cadherin's role in suppressing sarcoma growth through both signaling (inhibiting p-CREB and TBX2) and mechanical (enhancing cell-cell adhesion) mechanisms.