PTMViz: a tool for analyzing and visualizing histone post translational modification data
BMC Bioinformatics, 2021 Background Histone post-translational modifications (PTMs) play an important role in our system by regulating the structure of chromatin and therefore contribute to the regulation of gene and protein expression. Irregularities in histone PTMs can lead to
Kevin Chappell +6 more
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Bio-Protocol, 2021 In the field of chromatin biology, a major goal of understanding the roles of histone post-translational modifications is to identify the proteins and domains that recognize these modifications.
Mark Soo, Arneet Saltzman
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Histone ubiquitination and deubiquitination in transcription, DNA damage response, and cancer
Frontiers in Oncology, 2012 Histone post-transcriptional modifications play essential roles in regulation of all DNA related processes. Among them, histone ubiquitination has been discovered for more than three decades.
Jian eCao, Qin eYan
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Hi–C interaction graph analysis reveals the impact of histone modifications in chromatin shape
Applied Network Science, 2021 Chromosome conformation capture experiments such as Hi–C map the three-dimensional spatial organization of genomes in a genome-wide scale. Even though Hi–C interactions are not biased towards any of the histone modifications, previous analysis has ...
Emre Sefer
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Classification of Promoters Based on the Combination of Core Promoter Elements Exhibits Different Histone Modification Patterns. [PDF]
PLoS ONE, 2016 Four different histones (H2A, H2B, H3, and H4; two subunits each) constitute a histone octamer, around which DNA wraps to form histone-DNA complexes called nucleosomes.
Yayoi Natsume-Kitatani +1 more
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Resetting histone modifications during human parental-to-zygotic transition
Science, 2019 Epigenetics of human embryonic development Substantial epigenetic reprogramming occurs in mammalian early development. Xia et al. investigated the reprogramming dynamics of three key histone modifications in human early embryonic development.
Weikun Xia +23 more
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DeepDiff: DEEP‐learning for predicting DIFFerential gene expression from histone modifications [PDF]
Bioinform., 2018 Motivation Computational methods that predict differential gene expression from histone modification signals are highly desirable for understanding how histone modifications control the functional heterogeneity of cells through influencing differential ...
Arshdeep Sekhon +2 more
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Nature Neuroscience, 2018 Internal N6-methyladenosine (m6A) modification is widespread in messenger RNAs (mRNAs) and is catalyzed by heterodimers of methyltransferase-like protein 3 (Mettl3) and Mettl14.
Yang Wang +10 more
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ChIP-seq profiling of H3K4me3 and H3K27me3 in an invasive insect, Bactroceradorsalis
Frontiers in Genetics, 2023 Introduction: While it has been suggested that histone modifications can facilitate animal responses to rapidly changing environments, few studies have profiled whole-genome histone modification patterns in invasive species, leaving the regulatory ...
Yan Zhao +3 more
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DeepChrome: deep-learning for predicting gene expression from histone modifications [PDF]
Bioinform., 2016 MOTIVATION Histone modifications are among the most important factors that control gene regulation. Computational methods that predict gene expression from histone modification signals are highly desirable for understanding their combinatorial effects in
Ritambhara Singh +3 more
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