DNA methylation QTL mapping across diverse human tissues provides molecular links between genetic variation and complex traits

M Oliva, K Demanelis, Y Lu, M Chernoff, F Jasmine… - Nature …, 2023 - nature.com
Studies of DNA methylation (DNAm) in solid human tissues are relatively scarce; tissue-
specific characterization of DNAm is needed to understand its role in gene regulation and its …

DNA methylation biomarkers in asthma and rhinitis: are we there yet?

E Legaki, C Arsenis, S Taka… - Clinical and …, 2022 - Wiley Online Library
The study of epigenetics has improved our understanding of mechanisms underpinning
gene‐environment interactions and is providing new insights in the pathophysiology of …

Epigenetic regulation of pediatric and neonatal immune responses

J Bermick, M Schaller - Pediatric research, 2022 - nature.com
Epigenetic regulation of transcription is a collective term that refers to mechanisms known to
regulate gene transcription without changing the underlying DNA sequence. These …

Deep neural networks with knockoff features identify nonlinear causal relations and estimate effect sizes in complex biological systems

Z Fan, KF Kernan, A Sriram, PV Benos, SW Canna… - …, 2023 - academic.oup.com
Background Learning the causal structure helps identify risk factors, disease mechanisms,
and candidate therapeutics for complex diseases. However, although complex biological …

Detecting the multiomics signatures of factor-specific inflammatory effects on airway smooth muscles

YH Zhang, Z Li, T Zeng, L Chen, H Li, T Huang… - Frontiers in …, 2021 - frontiersin.org
Smooth muscles are a specific muscle subtype that is widely identified in the tissues of
internal passageways. This muscle subtype has the capacity for controlled or regulated …

Identification of autosomal cis expression quantitative trait methylation (cis eQTMs) in children's blood

C Ruiz-Arenas, C Hernandez-Ferrer, M Vives-Usano… - Elife, 2022 - elifesciences.org
Background: The identification of expression quantitative trait methylation (eQTMs), defined
as associations between DNA methylation levels and gene expression, might help the …

[HTML][HTML] Epigenome-wide association studies of allergic disease and the environment

A Cardenas, RP Fadadu, GH Koppelman - Journal of Allergy and Clinical …, 2023 - Elsevier
The epigenome is at the intersection of the environment, genotype, and cellular response.
DNA methylation of cytosine nucleotides, the most studied epigenetic modification, has been …

Local diversity of drought resistance and resilience in Populus tomentosa correlates with the variation of DNA methylation

J Zhou, L Xiao, R Huang, F Song, L Li… - Plant, Cell & …, 2023 - Wiley Online Library
Little information is known about DNA methylation variation in shaping environment‐specific
drought resistance and resilience for tree adaptation. In this study, we leveraged RNA …

Multi-omics colocalization with genome-wide association studies reveals a context-specific genetic mechanism at a childhood onset asthma risk locus

MM Soliai, A Kato, BA Helling, CT Stanhope… - Genome medicine, 2021 - Springer
Background Genome-wide association studies (GWASs) have identified thousands of
variants associated with asthma and other complex diseases. However, the functional …

Tumor expression quantitative trait methylation screening reveals distinct CpG panels for deconvolving cancer immune signatures

X Yu, L Cen, YA Chen, J Markowitz, TI Shaw, KY Tsai… - Cancer research, 2022 - AACR
DNA methylation signatures in tumors could serve as reliable biomarkers that are accessible
in archival tissues for tracking the epigenetic dynamics shaped by both cancer cells and the …