Darren R. Tyson

KLF4 promotes a KRT13+ hillock-like state in lung squamous cell carcinoma

The paper identifies a KRT13+ hillock-like cell state in LUSC, driven by KLF4, which contributes to therapeutic resistance and heterogeneity.

Basal cell of origin resolves neuroendocrine-tuft lineage plasticity in cancer

The paper identifies basal cells as the origin of neuroendocrine-tuft-like tumors in SCLC, revealing lineage plasticity and transcriptional states that mirror human cancer and normal cell injury responses.

Intercellular signaling reinforces single-cell level phenotypic transitions and facilitates robust re-equilibrium of heterogeneous cancer cell populations

The paper investigates how intercellular signaling influences phenotypic transitions in cancer cells using scRNA-seq data and mathematical models, finding that signaling reinforces heterogeneity and robustness in tumor populations.

DNA damage response signatures are associated with frontline chemotherapy response and routes of tumor evolution in extensive stage small cell lung cancer

This study identifies three distinct DDR phenotypes in SCLC associated with chemotherapy response and tumor evolution.

Addressing persistent challenges in digital image analysis of cancerous tissues

The paper discusses challenges in digital image analysis of cancerous tissues and outlines solutions developed during a 2022 hackathon.

Cancer Hallmarks Define a Continuum of Plastic Cell States between Small Cell Lung Cancer Archetypes

This study shows SCLC cells exist in a continuum of plastic states rather than discrete subtypes, with gene expression patterns linked to cancer hallmarks and potential therapeutic targets.

Real-time luminescence enables continuous drug-response analysis in adherent and suspension cell lines

This paper introduces a method using real-time luminescence to estimate drug response in cell lines, avoiding the need for cell counting and fluorescent labeling.

Heterogeneous, Population-Level Drug-Tolerant Persisters Exhibit Ion-Channel Remodeling and Ferroptosis Susceptibility

The paper identifies heterogeneous drug-tolerant persisters (DTPs) as population-level states with distinct division and death rates, showing increased ferroptosis susceptibility.

A community-based approach to image analysis of cells, tissues and tumors

The paper discusses computational challenges in analyzing multiplexed imaging data and outlines community-driven approaches to address them through workshops and hackathons.

A unifying framework disentangles genetic, epigenetic, and stochastic sources of drug-response variability in an in vitro model of tumor heterogeneity

This study disentangles genetic, epigenetic, and stochastic factors contributing to drug-response variability in an in vitro tumor heterogeneity model using PC9 cell lines.

ACDC: Automated Cell Detection and Counting for Time-lapse Fluorescence Microscopy

ACDC automates cell detection and counting in time-lapse microscopy images, achieving high accuracy without large annotated datasets.

Systems-level network modeling of Small Cell Lung Cancer subtypes identifies master regulators and destabilizers

The paper identifies four SCLC subtypes using a systems approach, with NEv2 being a new subtype, and finds master regulators and destabilizers using BooleaBayes.