Nature Communications · 2019 · 187 citations · 46 references
Life SciencesBiochemistryMolecular BiologyChromatin BiologyChromatin StructureEpigeneticsCancer EpigeneticsChromatinEpigenetic Regulation In CancerHistone ModificationsHistone Post-translational ModificationsHistone ProteinsBreast Cancer EpigeneticsCellular Damage MechanismsCovalent Chromatin ModificationsCovalent Histone ModificationsHistone-dna Interactions
Cellular proteins continuously undergo non-enzymatic covalent modifications (NECMs) that accumulate under normal physiological conditions and are stimulated by changes in the cellular microenvironment. Glycation, the hallmark of diabetes, is a prevalent NECM associated with an array of pathologies. Histone proteins are particularly susceptible to NECMs due to their long half-lives and nucleophilic disordered tails that undergo extensive regulatory modifications; however, histone NECMs remain poorly understood. Here we perform a detailed analysis of histone glycation in vitro and in vivo and find it has global ramifications on histone enzymatic PTMs, the assembly and stability of nucleosomes, and chromatin architecture. Importantly, we identify a physiologic regulation mechanism, the enzyme DJ-1, which functions as a potent histone deglycase. Finally, we detect intense histone glycation and DJ-1 overexpression in breast cancer tumors. Collectively, our results suggest an additional mechanism for cellular metabolic damage through epigenetic perturbation, with implications in pathogenesis.
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Model-based Analysis of ChIP-Seq (MACS)
Yong Zhang, Tao Liu, Clifford A. Meyer et al. · Genome biology · 2008 · 19.9K citations · Full text
An integrated encyclopedia of DNA elements in the human genome
Aligning sequence reads, clone sequences and assembly con*gs with BWA-MEM
Heng Li · arXiv (Cornell University) · 2014 · 5.8K citations · Full text
Min Xiu, Juanjuan Xing, Shaoqing Yu et al. · Cellular Physiology and Biochemistry · 2017 · 5.8K citations · Full text