Epigenetic dysregulation is a common feature of most cancers, often occurring directly
through alteration of epigenetic machinery. Over the last several years, a new generation of …

Chromatin accessibility, or the physical access to chromatinized DNA, is a widely studied
characteristic of the eukaryotic genome. As active regulatory DNA elements are generally …

All multicellular organisms rely on differential gene transcription regulated by genomic
enhancers, which function through cofactors that are recruited by transcription factors …

Intron retention (IR) is a form of alternative splicing that has long been neglected in
mammalian systems although it has been studied for decades in non-mammalian species …

Following fertilization in mammals, the gametes are reprogrammed to create a totipotent
zygote, a process that involves de novo establishment of chromatin domains. A major …

Enhancer sequences control gene expression and comprise binding sites (motifs) for
different transcription factors (TFs). Despite extensive genetic and computational studies, the …

Background Hypoxia is pervasive in cancer and other diseases. Cells sense and adapt to
hypoxia by activating hypoxia-inducible transcription factors (HIFs), but it is still an …

Cellular heterogeneity confounds in situ assays of transcription factor (TF) binding. Single-
cell RNA sequencing (scRNA-seq) deconvolves cell types from gene expression, but no …

The development of high-throughput sequencing (next-generation sequencing technology
(NGS)) and the continuous increase in experimental throughput require the upstream …

Programs of gene transcription are controlled by cis-acting DNA elements, including
enhancers, silencers, and promoters. Local accessibility of chromatin has proven to be a …