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schex avoids overplotting for large single-cell RNA-sequencing datasets.
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DNAshapeR: an R/Bioconductor package for DNA shape prediction and feature encoding.
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A Cross-Generational Methylomic Signature of Infant Maltreatment in Newborn Rhesus Macaques.
Biol Psychiatry. 2025 Mar 5. doi: 10.1016/j.biopsych.2025.02.901.
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Longitudinal leucocyte DNA methylation changes in Mesoamerican nephropathy.
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Parental arsenic exposure and tissue-specific DNA methylation in Bangladeshi infants with spina bifida.
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Alcohol Use Disorder-Associated DNA Methylation in the Nucleus Accumbens and Dorsolateral Prefrontal Cortex.
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Prenatal black carbon exposure and DNA methylation in umbilical cord blood.
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Firefighting, per- and polyfluoroalkyl substances, and DNA methylation of genes associated with prostate cancer risk.
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Patterns of Reliability: Assessing the Reproducibility and Integrity of DNA Methylation Measurement.
Patterns (N Y). 2020 May 8;1(2). doi: 10.1016/j.patter.2020.100014. Epub 2020 Apr 23.
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Blood DNA Methylation and Breast Cancer: A Prospective Case-Cohort Analysis in the Sister Study.
J Natl Cancer Inst. 2020 Jan 1;112(1):87-94. doi: 10.1093/jnci/djz065.
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Assessing genome-wide significance for the detection of differentially methylated regions.
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De novo identification of differentially methylated regions in the human genome.
Epigenetics Chromatin. 2015 Jan 27;8:6. doi: 10.1186/1756-8935-8-6. eCollection 2015.
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Probe Lasso: a novel method to rope in differentially methylated regions with 450K DNA methylation data.
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Charting a dynamic DNA methylation landscape of the human genome.
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Comb-p: software for combining, analyzing, grouping and correcting spatially correlated P-values.
Bioinformatics. 2012 Nov 15;28(22):2986-8. doi: 10.1093/bioinformatics/bts545. Epub 2012 Sep 5.
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Bump hunting to identify differentially methylated regions in epigenetic epidemiology studies.
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