Andrew P. Feinberg

The paper analyzes DNA methylation stochasticity in AML subtypes, identifying high-entropy subtypes and linking methylation entropy to transcriptional variability and leukemogenesis.

This study shows DNMT3AR882H mutations are not required for maintaining AML but are linked to higher leukemia stem cell frequency.

The paper investigates DNA methylation changes during pancreatic acinar-ductal metaplasia (ADM) and their persistence without Kras mutation, linking epigenetic memory to signaling pathway alterations and cancer cell plasticity.

This study identifies convergence of aging and rejuvenation-related DNA methylation changes on PRC2 target genes in reprogrammed mouse skin.

The paper uses mouse models to study diet-induced metabolic syndrome, identifies strain-specific transcriptional and epigenomic changes, and tests genotype-targeted pharmacological interventions.

The paper analyzes DNA methylation entropy in human and mouse datasets, finding associations with sequence features, developmental patterns, and gene expression variability.

The paper identifies brain region-specific variably methylated regions (VMRs) enriched for schizophrenia heritability using DNA methylation data from neuronal nuclei across multiple brain regions.

The paper identifies DNA methylation at ZNF300 associated with fetal sex and placental morphology using whole genome bisulfite sequencing and multiple datasets.

The paper introduces a method to model DNA methylation landscapes from nanopore sequencing data, accounting for sequencer noise and demonstrating its potential through simulations.

The paper analyzes whole-genome bisulfite sequencing data from two divergent mouse strains to address challenges in differential methylation analysis due to strain-specific CpG sites.

This paper presents the largest case-control epigenome-wide association study (EWAS) for autism spectrum disorder (ASD) using blood DNA methylation data, finding no significant CpG sites but suggestive associations and concordance with brain samples.

This paper introduces Arioc, a GPU-accelerated short-read aligner for BS-seq data, showing improved speed and accuracy compared to existing tools.

The paper integrates genetic and epigenetic data to identify ASD-associated SNPs enriched in tissue-specific meQTLs and reveals immune-related pathways and psychiatric condition links.

The paper identifies brain region-specific DNA methylation and chromatin accessibility differences and links them to heritability of neuropsychiatric disorders.

The paper identifies gap probes in Illumina methylation array data that show clustered methylation distributions, showing they can reflect genetic variation and aid in population stratification adjustment.