Profiling genome-wide DNA methylation

WS Yong, FM Hsu, PY Chen - Epigenetics & chromatin, 2016 - Springer
DNA methylation is an epigenetic modification that plays an important role in regulating
gene expression and therefore a broad range of biological processes and diseases. DNA …

Principles and challenges of genome-wide DNA methylation analysis

PW Laird - Nature Reviews Genetics, 2010 - nature.com
Methylation of cytosine bases in DNA provides a layer of epigenetic control in many
eukaryotes that has important implications for normal biology and disease. Therefore …

DNA methylation-free Arabidopsis reveals crucial roles of DNA methylation in regulating gene expression and development

L He, H Huang, M Bradai, C Zhao, Y You, J Ma… - Nature …, 2022 - nature.com
A contribution of DNA methylation to defense against invading nucleic acids and
maintenance of genome integrity is uncontested; however, our understanding of the extent …

Deleting DNMT3A in CAR T cells prevents exhaustion and enhances antitumor activity

B Prinzing, CC Zebley, CT Petersen, Y Fan… - Science translational …, 2021 - science.org
Chimeric antigen receptor (CAR) T cell therapy is revolutionizing cancer immunotherapy for
patients with B cell malignancies and is now being developed for solid tumors and chronic …

The origin of highly elevated cell-free DNA in healthy individuals and patients with pancreatic, colorectal, lung, or ovarian cancer

AK Mattox, C Douville, Y Wang, M Popoli, J Ptak… - Cancer …, 2023 - aacrjournals.org
Cell-free DNA (cfDNA) concentrations from patients with cancer are often elevated
compared with those of healthy controls, but the sources of this extra cfDNA have never …

Genome assembly and genetic dissection of a prominent drought-resistant maize germplasm

T Tian, S Wang, S Yang, Z Yang, S Liu, Y Wang… - Nature Genetics, 2023 - nature.com
In the context of climate change, drought is one of the most limiting factors that influence
crop production. Maize, as a major crop, is highly vulnerable to water deficit, which causes …

TOX reinforces the phenotype and longevity of exhausted T cells in chronic viral infection

F Alfei, K Kanev, M Hofmann, M Wu, HE Ghoneim… - Nature, 2019 - nature.com
Cytotoxic T cells are essential mediators of protective immunity to viral infection and
malignant tumours and are a key target of immunotherapy approaches. However, prolonged …

Rapid and accurate alignment of nucleotide conversion sequencing reads with HISAT-3N

Y Zhang, C Park, C Bennett, M Thornton… - Genome …, 2021 - genome.cshlp.org
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 …

[HTML][HTML] Resurrection of endogenous retroviruses during aging reinforces senescence

X Liu, Z Liu, Z Wu, J Ren, Y Fan, L Sun, G Cao, Y Niu… - Cell, 2023 - cell.com
Whether and how certain transposable elements with viral origins, such as endogenous
retroviruses (ERVs) dormant in our genomes, can become awakened and contribute to the …

Active DNA demethylation promotes cell fate specification and the DNA damage response

D Wang, W Wu, E Callen, R Pavani, N Zolnerowich… - Science, 2022 - science.org
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 …