Cell types in environmental epigenetic studies: biological and epidemiological frameworks

KA Campbell, JA Colacino, SK Park… - Current environmental …, 2020 - Springer
… simplifies the causal diagram and reduces sources of potential bias. … Now, we focus on
modeling the tissue epigenotype as the outcome to understand the role cellular heterogeneity

Not every estimate counts–evaluation of cell composition estimation approaches in brain bulk tissue data

L Toker, GS Nido, C Tzoulis - Genome Medicine, 2023 - Springer
… a major caveat of heterogeneity in the cellular composition of … The strong bias towards
cell type-specific H3K27ac regions … fold of change in all peaks overlapping with a cell type-specific

Epigenetic research in neuropsychiatric disorders: the “tissue issue”

KM Bakulski, A Halladay, VW Hu, J Mill… - Current behavioral …, 2016 - Springer
Brain tissue studies are challenged by small sample sizes of cases and controls, incomplete
phenotyping, post-mortem timing, and cellular heterogeneity, … Further, there may be bias in …

Epigenetics of cell fate reprogramming and its implications for neurological disorders modelling

M Grzybek, A Golonko, M Walczak, P Lisowski - Neurobiology of Disease, 2017 - Elsevier
… We conclude that sample heterogeneity masks … particular, we suggest that exploitation of
the single-cell composition of the epigenome will provide important insights into heterogeneity

Quantifying the proportion of different cell types in the human cortex using DNA methylation profiles

E Hannon, EL Dempster, JP Davies, B Chioza… - BMC biology, 2024 - Springer
… control of cellular heterogeneity in epigenetic studies of brain … that some cell types were
associated with a particular bias in … < 5 × 10 −3 , corrected for 10 cell types) for the prevalence of …

CHAS, a deconvolution tool, infers cell type-specific signatures in bulk brain histone acetylation studies of brain disorders

KB Murphy, A Nott, SJ Marzi - bioRxiv, 2021 - biorxiv.org
… not account for the high cellular heterogeneity in the brain. This can … cell epigenotype specific
model for the correction of brain cellular heterogeneity bias and its application to age, brain

Genetic architecture of epigenetic and neuronal ageing rates in human brain regions

AT Lu, E Hannon, ME Levine, EM Crimmins… - Nature …, 2017 - nature.com
… Third, we applied genomic control corrections to the meta-… SNPs that exhibited substantial
heterogeneity across studies … to detect and correct for the bias due to directional pleiotropy 41 . …

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
… the cellular heterogeneity and complexity of the brain is … -based algorithm, cell epigenotype
specific (CETS) marks, to … , including artificial bias in counting the cells and the destruction of …

Large eQTL meta-analysis reveals differing patterns between cerebral cortical and cerebellar brain regions

SK Sieberts, TM Perumal, MM Carrasquillo, M Allen… - Scientific data, 2020 - nature.com
… less than 18, to limit heterogeneity due to differences between the mature and developing
brain. … and to develop models to deconvolve the cell-type specific regulatory effects in different …

Epigenetic assimilation in the aging human brain

G Oh, S Ebrahimi, SC Wang, R Cortese, ZA Kaminsky… - Genome biology, 2016 - Springer
… boundaries change in older human brains and buccal cells. … the cellular heterogeneity
problem is either by flow sorting the … for ascertainment bias and confounding cellular composition …