DNA methylation profiles after ART during human lifespan: a systematic review and meta-analysis

J Barberet, B Ducreux, M Guilleman… - Human …, 2022 - academic.oup.com
BACKGROUND The many manipulations and processes used in ART coincide with the
timing of epigenetic reprogramming and imprinting during female gametogenesis and pre …

Epigenetic signatures in cancer: proper controls, current challenges and the potential for clinical translation

D Mancarella, C Plass - Genome medicine, 2021 - Springer
Epigenetic alterations are associated with normal biological processes such as aging or
differentiation. Changes in global epigenetic signatures, together with genetic alterations …

Benchmarking and integration of methods for deconvoluting spatial transcriptomic data

L Yan, X Sun - Bioinformatics, 2023 - academic.oup.com
Motivation The rapid development of spatial transcriptomics (ST) approaches has provided
new insights into understanding tissue architecture and function. However, the gene …

Impact of the methylation classifier and ancillary methods on CNS tumor diagnostics

Z Wu, Z Abdullaev, D Pratt, HJ Chung… - Neuro …, 2022 - academic.oup.com
Background Accurate CNS tumor diagnosis can be challenging, and methylation profiling
can serve as an adjunct to classify diagnostically difficult cases. Methods An integrated …

Phenotypic plasticity: what has DNA methylation got to do with it?

EJ Duncan, CB Cunningham, PK Dearden - Insects, 2022 - mdpi.com
Simple Summary Phenotypic plasticity, the genome producing multiple phenotypes, is
central to an animal's ability to respond to environmental change, expected or otherwise. A …

Clinical value of DNA methylation markers in autoimmune rheumatic diseases

E Ballestar, AH Sawalha, Q Lu - Nature Reviews Rheumatology, 2020 - nature.com
Methylation of cytosine residues in DNA, the best studied epigenetic modification, is
associated with gene transcription and nuclear organization, and ultimately the function of a …

Methylation differences in Alzheimer's disease neuropathologic change in the aged human brain

AL Lang, T Eulalio, E Fox, K Yakabi, SA Bukhari… - Acta Neuropathologica …, 2022 - Springer
Alzheimer's disease (AD) is the most common cause of dementia with advancing age as its
strongest risk factor. AD neuropathologic change (ADNC) is known to be associated with …

An overview of DNA methylation-derived trait score methods and applications

MF Nabais, DA Gadd, E Hannon, J Mill, AF McRae… - Genome Biology, 2023 - Springer
Microarray technology has been used to measure genome-wide DNA methylation in
thousands of individuals. These studies typically test the associations between individual …

Bayesian estimation of cell type–specific gene expression with prior derived from single-cell data

J Wang, K Roeder, B Devlin - Genome research, 2021 - genome.cshlp.org
When assessed over a large number of samples, bulk RNA sequencing provides reliable
data for gene expression at the tissue level. Single-cell RNA sequencing (scRNA-seq) …

MiXcan: a framework for cell-type-aware transcriptome-wide association studies with an application to breast cancer

X Song, J Ji, JH Rothstein, SE Alexeeff… - Nature …, 2023 - nature.com
Human bulk tissue samples comprise multiple cell types with diverse roles in disease
etiology. Conventional transcriptome-wide association study approaches predict genetically …