An optimized library for reference-based deconvolution of whole-blood biospecimens assayed using the Illumina HumanMethylationEPIC BeadArray

LA Salas, DC Koestler, RA Butler, HM Hansen… - Genome biology, 2018 - Springer
Genome-wide methylation arrays are powerful tools for assessing cell composition of
complex mixtures. We compare three approaches to select reference libraries for …

Enhanced cell deconvolution of peripheral blood using DNA methylation for high-resolution immune profiling

LA Salas, Z Zhang, DC Koestler, RA Butler… - Nature …, 2022 - nature.com
DNA methylation microarrays can be employed to interrogate cell-type composition in
complex tissues. Here, we expand reference-based deconvolution of blood DNA …

Quantitative reconstruction of leukocyte subsets using DNA methylation

WP Accomando, JK Wiencke, EA Houseman… - Genome biology, 2014 - Springer
Background Cell lineage-specific DNA methylation patterns distinguish normal human
leukocyte subsets and can be used to detect and quantify these subsets in peripheral blood …

Improving cell mixture deconvolution by id entifying o ptimal dna methylation l ibraries (idol)

DC Koestler, MJ Jones, J Usset, BC Christensen… - BMC …, 2016 - Springer
Background Confounding due to cellular heterogeneity represents one of the foremost
challenges currently facing Epigenome-Wide Association Studies (EWAS). Statistical …

Blood-based profiles of DNA methylation predict the underlying distribution of cell types: a validation analysis

DC Koestler, BC Christensen, MR Karagas, CJ Marsit… - Epigenetics, 2013 - Taylor & Francis
The potential influence of underlying differences in relative leukocyte distributions in studies
involving blood-based profiling of DNA methylation is well recognized and has prompted …

DNA methylation arrays as surrogate measures of cell mixture distribution

EA Houseman, WP Accomando, DC Koestler… - BMC …, 2012 - Springer
Background There has been a long-standing need in biomedical research for a method that
quantifies the normally mixed composition of leukocytes beyond what is possible by simple …

MethylResolver—a method for deconvoluting bulk DNA methylation profiles into known and unknown cell contents

D Arneson, X Yang, K Wang - Communications biology, 2020 - nature.com
Bulk tissue DNA methylation profiling has been used to examine epigenetic mechanisms
and biomarkers of complex diseases such as cancer. However, heterogeneity of cellular …

Cell-type deconvolution from DNA methylation: a review of recent applications

AJ Titus, RM Gallimore, LA Salas… - Human molecular …, 2017 - academic.oup.com
Recent advances in cell-type deconvolution approaches are adding to our understanding of
the biology underlying disease development and progression. DNA methylation (DNAm) …

A meta-analysis of immune-cell fractions at high resolution reveals novel associations with common phenotypes and health outcomes

Q Luo, VB Dwaraka, Q Chen, H Tong, T Zhu, K Seale… - Genome Medicine, 2023 - Springer
Background Changes in cell-type composition of tissues are associated with a wide range of
diseases and environmental risk factors and may be causally implicated in disease …

[PDF][PDF] High-resolution single-cell DNA methylation measurements reveal epigenetically distinct hematopoietic stem cell subpopulations

T Hui, Q Cao, J Wegrzyn-Woltosz, K O'Neill… - Stem cell reports, 2018 - cell.com
Increasing evidence of functional and transcriptional heterogeneity in phenotypically similar
cells examined individually has prompted interest in obtaining parallel methylome data. We …