DNA methylation analysis by sequencing is becoming increasingly popular, yielding
methylomes at single-base pair and single-molecule resolution. It has tremendous potential …

Long non-coding RNAs (lncRNAs) have been shown to play a role in the pathogenesis of
ulcerative colitis (UC). Although epigenetic processes such as DNA methylation and lncRNA …

Sample-wise deconvolution methods estimate cell-type proportions and gene expressions
in bulk tissue samples, yet their performance and biological applications remain unexplored …

Although intratumoral heterogeneity has been established in pediatric central nervous
system tumors, epigenomic alterations at the cell type level have largely remained …

Bulk high-throughput omics data contain signals from a mixture of cell types. Recent
developments of deconvolution methods facilitate cell type-specific inferences from bulk …

Motivation Spatial transcriptomic techniques can profile gene expressions while retaining
the spatial information, thus offering unprecedented opportunities to explore the relationship …

Background Due to interindividual variation in the cellular composition of the human cortex,
it is essential that covariates that capture these differences are included in epigenome-wide …

Aims: To assess the epigenetic effects of in utero exposure to maternal Trypanosoma cruzi
infection. Methods: We performed an epigenome-wide association study to compare the …

Background: Cellular deconvolution of bulk RNA-sequencing (RNA-seq) data using single
cell or nuclei RNA-seq (sc/snRNA-seq) reference data is an important strategy for estimating …

Cytosine methylome data is commonly generated through next-generation sequencing, with
analyses averaging methylation states of individual reads. We propose an alternative …