The interplay between chromatin, transcription factors and genes generates complex
regulatory circuits that can be represented as gene regulatory networks (GRNs). The study …

The immune system comprises diverse specialized cell types that cooperate to defend the
host against a wide range of pathogenic threats. Recent advancements in single-cell and …

Joint profiling of chromatin accessibility and gene expression in individual cells provides an
opportunity to decipher enhancer-driven gene regulatory networks (GRNs). Here we present …

Inferring gene regulatory networks (GRNs) is a fundamental challenge in biology that aims
to unravel the complex relationships between genes and their regulators. Deciphering these …

In the mammalian liver, hepatocytes exhibit diverse metabolic and functional profiles based
on their location within the liver lobule. However, it is unclear whether this spatial variation …

Histone modifications are associated with distinct transcriptional states, but it is unclear
whether they instruct gene expression. To investigate this, we mutate histone H3. 3 K9 and …

While a growing number of algorithms for causal discovery of directed acyclic graphs from
observational and interventional data have been proposed, the robust identification of cyclic …

Cell fate plasticity enables development, yet unlocked plasticity is a cancer hallmark. While
transcription master regulators induce lineage-specific genes to restrict plasticity, it remains …

Acute myeloid leukemia (AML) is a hematologic malignancy for which allogeneic
hematopoietic cell transplantation (allo-HCT) often remains the only curative therapeutic …

Differential gene expression in response to perturbations is mediated at least in part by
changes in binding of transcription factors (TFs) and other proteins at specific genomic …