Abstract We previously reported Paired-Tag, a combinatorial indexing-based method that
can simultaneously map histone modifications and gene expression at single-cell resolution …

Inactivating mutations in chromatin modifiers, like the α-thalassemia/mental retardation, X-
linked (ATRX)-death domain-associated protein (DAXX) chromatin remodeling/histone H3. 3 …

Lysine-specific histone demethylase 1 (LSD1), which demethylates mono-or di-methylated
histone H3 on lysine 4 (H3K4me1/2), is essential for early embryogenesis and development …

Wnt signaling orchestrates gene expression via its effector, β-catenin. However, it is
unknown whether β-catenin binds its target genomic regions simultaneously and how this …

Macrophages adopt distinct phenotypes in response to environmental cues, with type-2
cytokine interleukin-4 promoting a tissue-repair homeostatic state (M2IL4). Glucocorticoids …

The proneural transcription factor atonal basic helix–loop–helix transcription factor 7
(ATOH7) is expressed in early progenitors in the developing neuroretina. In vertebrates, this …

Genome-wide binding assays aspire to map the complete binding pattern of gene
regulators. Common practice relies on replication—duplicates or triplicates—and high …

All vertebrate genomes encode for three large histone H2A variants that have an additional
metabolite-binding globular macrodomain module, macroH2A. MacroH2A variants impact …

Exclusion regions are sections of reference genomes with abnormal pileups of short
sequencing reads. Removing reads overlapping them improves biological signal, and these …

Ligand-dependent transcription factors of the nuclear receptor (NR) family regulate diverse
aspects of metazoan biology, enabling communications between distant organs via small …