-
Article
Open AccessSpatial epigenome–transcriptome co-profiling of mammalian tissues
Emerging spatial technologies, including spatial transcriptomics and spatial epigenomics, are becoming powerful tools for profiling of cellular states in the tissue context1–5. However, current methods capture on...
-
Article
A complex epigenome-splicing crosstalk governs epithelial-to-mesenchymal transition in metastasis and brain development
Epithelial-to-mesenchymal transition (EMT) renders epithelial cells migratory properties. While epigenetic and splicing changes have been implicated in EMT, the mechanisms governing their crosstalk remain poor...
-
Article
Open AccessAuthor Correction: RADICL-seq identifies general and cell type–specific principles of genome-wide RNA-chromatin interactions
-
Article
Functionally distinct subgroups of oligodendrocyte precursor cells integrate neural activity and execute myelin formation
Recent reports have revealed that oligodendrocyte precursor cells (OPCs) are heterogeneous. It remains unclear whether such heterogeneity reflects different subtypes of cells with distinct functions or instead...
-
Article
Open AccessRADICL-seq identifies general and cell type–specific principles of genome-wide RNA-chromatin interactions
Mammalian genomes encode tens of thousands of noncoding RNAs. Most noncoding transcripts exhibit nuclear localization and several have been shown to play a role in the regulation of gene expression and chromat...
-
Article
Altered human oligodendrocyte heterogeneity in multiple sclerosis
Oligodendrocyte pathology is increasingly implicated in neurodegenerative diseases as oligodendrocytes both myelinate and provide metabolic support to axons. In multiple sclerosis (MS), demyelination in the ce...
-
Article
Disease-specific oligodendrocyte lineage cells arise in multiple sclerosis
Multiple sclerosis (MS) is characterized by an immune system attack targeting myelin, which is produced by oligodendrocytes (OLs). We performed single-cell transcriptomic analysis of OL lineage cells from the ...
-
Article
Open AccessA chromatin code for alternative splicing involving a putative association between CTCF and HP1α proteins
Alternative splicing is primarily controlled by the activity of splicing factors and by the elongation of the RNA polymerase II (RNAPII). Recent experiments have suggested a new complex network of splicing reg...
-
Article
A lncRNA regulates alternative splicing via establishment of a splicing-specific chromatin signature
The evolutionarily conserved antisense long noncoding RNA asFGFR2 influences cell type–specific alternative-splicing patterns of FGFR2 by recruiting chromatin modifiers to the locus.
-
Protocol
Methods to Study Splicing from High-Throughput RNA Sequencing Data
The development of novel high-throughput sequencing (HTS) methods for RNA (RNA-Seq) has provided a very powerful mean to study splicing under multiple conditions at unprecedented depth. However, the complexity...
-
Article
Databases and resources for human small non-coding RNAs
Recent advances in high-throughput sequencing have facilitated the genome-wide studies of small non-coding RNAs (sRNAs). Numerous studies have highlighted the role of various classes of sRNAs at different leve...
-
Article
Control of alternative splicing through siRNA-mediated transcriptional gene silencing
Exogenously applied small RNAs have previously been shown to inhibit transcriptional levels when targeted to promoters. They are now shown to alter the ratio of alternative splice forms. The features of splice...
