Cody N. Heiser

The paper identifies seven thymic conventional dendritic cell subsets and their distinct functional roles and dependencies on thymocyte subsets for homeostasis and activation.

The paper introduces MILWRM, a tool for detecting tissue domains in spatial-omics data, and demonstrates its application in human colonic polyps and mouse brain slices.

GammaGateR provides a semi-automated marker gating tool for multiplexed imaging data, improving consistency and reducing manual effort while revealing biological signals.

This study maps tumor evolution and microenvironment dynamics in colorectal cancer using spatial multi-omic data, identifying key genes associated with immune exclusion and prognosis.

The paper develops contamination-focused metrics and software to optimize scRNA-seq experiments by reducing ambient contamination through experimental adjustments.

The paper presents a pipeline for cell segmentation and quantification in complex tissue images using machine learning and deep learning methods.

dropkick improves scRNA-seq quality control by automatically distinguishing real cells from ambient barcodes, outperforming existing methods in recovering rare cell types and excluding noise.

The paper evaluates how well dimensionality reduction techniques preserve data structure in single-cell RNA sequencing datasets.