A hierarchical model for the control of epigenetic aging in mammals

M Lehmann, M Canatelli-Mallat, P Chiavellini… - Ageing Research …, 2020 - Elsevier
… There is ample evidence that a major component of that epigenetic pacemaker is DNA
methylation. The first clear indication that DNA methylation is a major component of this …

[HTML][HTML] Hierarchy and control of ageing-related methylation networks

G Palla, P Pollner, J Börcsök, A Major… - PLoS Computational …, 2021 - journals.plos.org
DNA methylation patterns among different tissues [29, 30], the specific ways in which the
DNA methylation … networks corresponding to both alternative epigenetic clocks and to sets of …

[HTML][HTML] … microenvironment epigenetic deconvolution for accurate cell type resolution in the tumor microenvironment using tumor-type-specific DNA methylation data

Z Zhang, JK Wiencke, KT Kelsey, DC Koestler… - Journal of translational …, 2022 - Springer
… We employed a novel tumor-type-specific hierarchical model using DNA methylation data
to deconvolve the tumor microenvironment with high resolution, accuracy, and specificity. The …

[HTML][HTML] DNA methylation: Precise modulation of chromatin structure and dynamics

S Li, Y Peng, AR Panchenko - Current opinion in structural biology, 2022 - Elsevier
DNA methylation plays a vital role in epigenetic regulation in both plants and animals,
and typically occurs at the 5-carbon position of the cytosine pyrimidine ring within the CpG …

[HTML][HTML] Universality of the DNA methylation codes in Eucaryotes

B Aliaga, I Bulla, G Mouahid, D Duval, C Grunau - Scientific reports, 2019 - nature.com
… Question arises if epigenetics provides just a set of … We argued that in the latter case the
epigenetic code should … data, and applied hierarchical clustering to identify methylation types in ~…

The diverse roles of DNA methylation in mammalian development and disease

MVC Greenberg, D Bourc'his - Nature reviews Molecular cell biology, 2019 - nature.com
… Perhaps the hierarchical and highly regulated heterochromatization of the X chromosome
… is differentially established in the two parental germlines; these epigenetically imprinted …

[HTML][HTML] Hierarchical deconvolution for extensive cell type resolution in the human brain using DNA methylation

Z Zhang, JK Wiencke, KT Kelsey, DC Koestler… - Frontiers in …, 2023 - frontiersin.org
… using a hierarchical modeling approach with differential DNA methylation patterns among
seven … related to pathobiological brain cell alteration and epigenetic regulation of the disease. …

[HTML][HTML] DNA methylation profiles capturing breast cancer heterogeneity

X Chen, J Zhang, X Dai - BMC genomics, 2019 - Springer
… As one of the most described epigenetic marks in human cancers, DNA methylation plays
… Purity of clusters obtained from hierarchical clustering using (d) pCpGs of GSE72245 on …

[HTML][HTML] Genome wide DNA methylation profiling identifies specific epigenetic features in high-risk cutaneous squamous cell carcinoma

D Hervás-Marín, F Higgins, O Sanmartín… - PLoS …, 2019 - journals.plos.org
DNA methylation profile in human skin from pre- and post-malignant multistage cSCC
using the Infinium DNA Methylation … to the results of a hierarchical clustering algorithm. Z-score …

[PDF][PDF] Novel diagnostic DNA methylation episignatures expand and refine the epigenetic landscapes of Mendelian disorders

MA Levy, H McConkey, J Kerkhof… - Human Genetics and …, 2022 - cell.com
… Using the final set of selected probes, we performed hierarchical clustering using the R …
Hierarchical clustering was assessed to ensure the case and control samples were properly …