Methods and applications for single-cell and spatial multi-omics
K Vandereyken, A Sifrim, B Thienpont… - Nature Reviews Genetics, 2023 - nature.com
The joint analysis of the genome, epigenome, transcriptome, proteome and/or metabolome
from single cells is transforming our understanding of cell biology in health and disease. In …
from single cells is transforming our understanding of cell biology in health and disease. In …
DNA methylation cancer biomarkers: translation to the clinic
Carcinogenesis is accompanied by widespread DNA methylation changes within the cell.
These changes are characterized by a globally hypomethylated genome with focal …
These changes are characterized by a globally hypomethylated genome with focal …
Spatial genomics enables multi-modal study of clonal heterogeneity in tissues
The state and behaviour of a cell can be influenced by both genetic and environmental
factors. In particular, tumour progression is determined by underlying genetic aberrations …
factors. In particular, tumour progression is determined by underlying genetic aberrations …
Enzymatic methyl sequencing detects DNA methylation at single-base resolution from picograms of DNA
R Vaisvila, VKC Ponnaluri, Z Sun… - Genome …, 2021 - genome.cshlp.org
Bisulfite sequencing detects 5mC and 5hmC at single-base resolution. However, bisulfite
treatment damages DNA, which results in fragmentation, DNA loss, and biased sequencing …
treatment damages DNA, which results in fragmentation, DNA loss, and biased sequencing …
Biological roles of RNA m5C modification and its implications in Cancer immunotherapy
H Song, J Zhang, B Liu, J Xu, B Cai, H Yang… - Biomarker …, 2022 - Springer
Epigenetics including DNA and RNA modifications have always been the hotspot field of life
sciences in the post-genome era. Since the first mapping of N6-methyladenosine (m6A) and …
sciences in the post-genome era. Since the first mapping of N6-methyladenosine (m6A) and …
Rapid and accurate alignment of nucleotide conversion sequencing reads with HISAT-3N
Sequencing technologies using nucleotide conversion techniques such as cytosine to
thymine in bisulfite-seq and thymine to cytosine in SLAM seq are powerful tools to explore …
thymine in bisulfite-seq and thymine to cytosine in SLAM seq are powerful tools to explore …
The DNA methylation landscape in cancer
As one of the most abundant and well-studied epigenetic modifications, DNA methylation
plays an essential role in normal development and cellular biology. Global alterations to the …
plays an essential role in normal development and cellular biology. Global alterations to the …
Simultaneous sequencing of genetic and epigenetic bases in DNA
DNA comprises molecular information stored in genetic and epigenetic bases, both of which
are vital to our understanding of biology. Most DNA sequencing approaches address either …
are vital to our understanding of biology. Most DNA sequencing approaches address either …
Joint single-cell profiling resolves 5mC and 5hmC and reveals their distinct gene regulatory effects
Abstract Oxidative modification of 5-methylcytosine (5mC) by ten-eleven translocation (TET)
DNA dioxygenases generates 5-hydroxymethylcytosine (5hmC), the most abundant form of …
DNA dioxygenases generates 5-hydroxymethylcytosine (5hmC), the most abundant form of …
Active DNA demethylation promotes cell fate specification and the DNA damage response
Neurons harbor high levels of single-strand DNA breaks (SSBs) that are targeted to
neuronal enhancers, but the source of this endogenous damage remains unclear. Using two …
neuronal enhancers, but the source of this endogenous damage remains unclear. Using two …