Roy Wollman

The paper introduces ATLAS, a method to map transcriptional differences across genetic backgrounds in mouse brains, revealing significant cell type distribution changes between sexes and genetic models.

CIPHER optimizes aggregate spatial transcriptomics experiments by jointly designing gene signatures and cell embeddings, improving decoding accuracy and experimental reliability.

The paper introduces an information-theoretic framework to define cell types by optimizing spatial information from molecular data in a whole-brain mouse spatial transcriptomic dataset.

The paper develops Bayesian methods for inferring dynamic parameters in single cells using gene expression and Ca2+ data, showing that transfer learning improves inference when cells are ordered by transcriptional similarity.

The paper quantifies how mRNA abundance explains entropy in Ca2+ signaling by analyzing gene expression and dynamic Ca2+ responses.

JSTA improves spatial transcriptomics accuracy by jointly segmenting cells and annotating their types, revealing detailed spatial gene expression patterns in mouse hippocampus.

The paper shows TNF shifts cells from slow, accurate to fast, error-prone apoptosis decisions, which limits HSV-1 spread.

scPNMF selects informative genes from scRNA-seq data to improve cell type distinction and enable alignment with targeted gene profiling data.

The paper identifies an incoherent feedforward loop involving NFκB/RelA and A20 that determines TNF-induced necroptosis decisions based on dynamic signaling.

This paper develops a platform to investigate locus-specific epigenetic drug sensitivity using DNA barcoding and single-cell measurements, revealing widespread sensitivities to three epi-drugs.

The paper quantifies the relative contributions of cell state and transcriptional bursting to gene expression variability in mammalian cells using MERFISH and Ca2+ response data.

The paper analyzes the accuracy of decoding dynamic NFkB signaling patterns through a mathematical model and shows that optimal decoding parameters can reduce information loss due to biochemical noise.