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1474 publications found×
In Situ Fixation Redefines Quiescence and Early Activation of Skeletal Muscle Stem Cells
Published: November, 2017

Abstract: Summary State of the art techniques have been developed to isolate and analyze cells from various tissues, aiming to capture their in vivo state. However, the majority of cell isolation protocols involve lengthy mechanical and enzymatic ...
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GATA2/3-TFAP2A/C transcription factor network couples human pluripotent stem cell differentiation to trophectoderm with repression of pluripotency
Published: November, 2017

Abstract: To elucidate the molecular basis of BMP4-induced differentiation of human pluripotent stem cells (PSCs) toward progeny with trophectoderm characteristics, we produced transcriptome, epigenome H3K4me3, H3K27me3, and CpG methylation maps of trophobl...
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5-Methylcytosine RNA Methylation in Arabidopsis Thaliana
Published: November, 2017

Abstract: 5-Methylcytosine (m5C) is a well-characterized DNA modification, and is also predominantly reported in abundant non-coding RNAs in both prokaryotes and eukaryotes. However, the distribution and biological functions of m5C in plant mRNAs remain lar...
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Drug-tunable multidimensional synthetic gene control using inducible degron-tagged dCas9 effectors
Published: October, 2017

Abstract: The nuclease-deactivated variant of CRISPR-Cas9 proteins (dCas9) fused to heterologous transactivation domains can act as a potent guide RNA sequence-directed inducer or repressor of gene expression in mammalian cells. In such a system the long-te...
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Alterations in the placental methylome with maternal obesity and evidence for metabolic regulation
Published: October, 2017

Abstract: The inflammatory and metabolic derangements of obesity in pregnant women generate an adverse intrauterine environment, increase pregnancy complications and adverse fetal outcomes and program the fetus for obesity and metabolic syndrome in later li...
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The Role of N-α-acetyltransferase 10 Protein in DNA Methylation and Genomic Imprinting
Published: October, 2017

Abstract: Genomic imprinting is an allelic gene expression phenomenon primarily controlled by allele-specific DNA methylation at the imprinting control region (ICR), but the underlying mechanism remains largely unclear. N-α-acetyltransferase 10 protei...
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The mixed lineage leukemia 4 (MLL4) methyltransferase complex is involved in transforming growth factor beta (TGF-β)-activated gene transcription.
Published: October, 2017

Abstract: Sma and Mad related (SMAD)-mediated Transforming Growth Factor β (TGF-β) and Bone Morphogenetic Protein (BMP) signaling is required for various cellular processes. The activated heterotrimeric SMAD protein complexes associate with nuclea...
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Rapid Communication: The correlation between histone modifications and expression of key genes involved in accumulation of adipose tissue in the pig.
Published: October, 2017

Abstract: Histone modification is a well-known epigenetic mechanism involved in regulation of gene expression; however, it has been poorly studied in adipose tissues of the pig. Understanding the molecular background of adipose tissue development and functi...
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TET2- and TDG-mediated changes are required for the acquisition of distinct histone modifications in divergent terminal differentiation of myeloid cells
Published: September, 2017

Abstract: The plasticity of myeloid cells is illustrated by a diversity of functions including their role as effectors of innate immunity as macrophages (MACs) and bone remodelling as osteoclasts (OCs). TET2, a methylcytosine dioxygenase highly expressed in...
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Predicting stimulation-dependent enhancer-promoter interactions from ChIP-Seq time course data
Published: September, 2017

Abstract: We have developed a machine learning approach to predict stimulation-dependent enhancer-promoter interactions using evidence from changes in genomic protein occupancy over time. The occupancy of estrogen receptor alpha (ERα), RNA polymerase ...
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In trans paired nicking triggers seamless genome editing without double-stranded DNA cutting
Published: September, 2017

Abstract: Precise genome editing involves homologous recombination between donor DNA and chromosomal sequences subjected to double-stranded DNA breaks made by programmable nucleases. Ideally, genome editing should be efficient, specific, and accurate. Howev...
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CDK8/19 Mediator kinases potentiate induction of transcription by NFκB
Published: September, 2017

Abstract: The nuclear factor-κB (NFκB) family of transcription factors has been implicated in inflammatory disorders, viral infections, and cancer. Most of the drugs that inhibit NFκB show significant side effects, possibly due to sustaine...
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Histone H4K20 tri-methylation at late-firing origins ensures timely heterochromatin replication
Published: September, 2017

Abstract: Among other targets, the protein lysine methyltransferase PR-Set7 induces histone H4 lysine 20 monomethylation (H4K20me1), which is the substrate for further methylation by the Suv4-20h methyltransferase. Although these enzymes have been implicate...
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Genetic Predisposition to Multiple Myeloma at 5q15 Is Mediated by an ELL2 Enhancer Polymorphism
Published: September, 2017

Abstract: Multiple myeloma (MM) is a malignancy of plasma cells. Genome-wide association studies have shown that variation at 5q15 influences MM risk. Here, we have sought to decipher the causal variant at 5q15 and the mechanism by which it influences tumor...
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DNA methylation of intragenic CpG islands depends on their transcriptional activity during differentiation and disease
Published: September, 2017

Abstract: The human genome contains ∼30,000 CpG islands (CGIs). While CGIs associated with promoters nearly always remain unmethylated, many of the ∼9,000 CGIs lying within gene bodies become methylated during development and differentiation. Both p...
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Distinct Circadian Signatures in Liver and Gut Clocks Revealed by Ketogenic Diet
Published: September, 2017

Abstract: The circadian clock orchestrates rhythms in physiology and behavior, allowing organismal adaptation to daily environmental changes. While food intake profoundly influences diurnal rhythms in the liver, how nutritional challenges are differentially...
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A lipodystrophy-causing lamin A mutant alters conformation and epigenetic regulation of the anti-adipogenic MIR335 locus
Published: September, 2017

Abstract: Mutations in the Lamin A/C (LMNA) gene-encoding nuclear LMNA cause laminopathies, which include partial lipodystrophies associated with metabolic syndromes. The lipodystrophy-associated LMNA p.R482W mutation is known to impair adipogenic different...
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Chromosome contacts in activated T cells identify autoimmune disease candidate genes
Published: September, 2017

Abstract: BACKGROUND: Autoimmune disease-associated variants are preferentially found in regulatory regions in immune cells, particularly CD4+ T cells. Linking such regulatory regions to gene promoters in disease-relevant cell contexts facilitates iden...
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Epigenetic variation between urban and rural populations of Darwin's finches
Published: August, 2017

Abstract: Background The molecular basis of evolutionary change is assumed to be genetic variation. However, growing evidence suggests that epigenetic mechanisms, such as DNA methylation, may also be involved in rapid adaptation to new environments. An...
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A lncRNA fine tunes the dynamics of a cell state transition involving Lin28, let-7 and de novo DNA methylation
Published: August, 2017

Abstract: Execution of pluripotency requires progression from the naïve status represented by mouse embryonic stem cells (ESCs) to a state capacitated for lineage specification. This transition is coordinated at multiple levels. Non-coding RNAs may con...
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Myc Regulates Chromatin Decompaction and Nuclear Architecture during B Cell Activation
Published: August, 2017

Abstract: 50 years ago, Vincent Allfrey and colleagues discovered that lymphocyte activation triggers massive acetylation of chromatin. However, the molecular mechanisms driving epigenetic accessibility are still unknown. We here show that stimulated lympho...
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Highly efficient gene inactivation by adenoviral CRISPR/Cas9 in human primary cells
Published: August, 2017

Abstract: Phenotypic assays using human primary cells are highly valuable tools for target discovery and validation in drug discovery. Expression knockdown (KD) of such targets in these assays allows the investigation of their role in models of disease proc...
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High Resolution Mapping of Chromatin Conformation in Cardiac Myocytes Reveals Structural Remodeling of the Epigenome in Heart Failure
Published: August, 2017

Abstract: Background -Cardiovascular disease is associated with epigenomic changes in the heart, however the endogenous structure of cardiac myocyte chromatin has never been determined. Methods -To investigate the mechanisms of epigenomic function in the he...
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Circadian Reprogramming in the Liver Identifies Metabolic Pathways of Aging
Published: August, 2017

Abstract: The process of aging and circadian rhythms are intimately intertwined, but how peripheral clocks involved in metabolic homeostasis contribute to aging remains unknown. Importantly, caloric restriction (CR) extends lifespan in several organisms and...
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Tri-methylation of H3K79 is decreased in TGF-β1-induced epithelial-to-mesenchymal transition in lung cancer
Published: August, 2017

Abstract: BACKGROUND: The epithelial-to-mesenchymal transition (EMT) enables epithelial cancer cells to acquire mesenchymal features and contributes to metastasis and resistance to treatment. This process involves epigenetic reprogramming for gene expres...
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Maternal obesity programs increased leptin gene expression in rat male offspring via epigenetic modifications in a depot-specific manner
Published: August, 2017

Abstract: OBJECTIVE: According to the Developmental Origin of Health and Disease (DOHaD) concept, maternal obesity and accelerated growth in neonates predispose offspring to white adipose tissue (WAT) accumulation. In rodents, adipogenesis mainly develop...
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A novel FOXA1/ESR1 interacting pathway: A study of Oncomine™ breast cancer microarrays
Published: August, 2017

Abstract: Forkhead box protein A1 (FOXA1) is essential for the growth and differentiation of breast epithelium, and has a favorable outcome in breast cancer (BC). Elevated FOXA1 expression in BC also facilitates hormone responsiveness in estrogen receptor (...
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Multivalent binding of PWWP2A to H2A.Z regulates mitosis and neural crest differentiation
Published: August, 2017

Abstract: Replacement of canonical histones with specialized histone variants promotes altering of chromatin structure and function. The essential histone variant H2A.Z affects various DNA-based processes via poorly understood mechanisms. Here, we determine...
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Increased 5-hydroxymethylation levels in the hippocampus of rat extinguished from cocaine self-administration
Published: July, 2017

Abstract: Drug craving and relapse risk during abstinence from cocaine are thought to be caused by persistent changes in transcription and chromatin regulation. Although several brain regions are involved in these processes, the hippocampus seems to play an...
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Unique roles for histone H3K9me states in RNAi and heritable silencing of transcription
Published: July, 2017

Abstract: Heterochromatic DNA domains have important roles in the regulation of gene expression and maintenance of genome stability by silencing repetitive DNA elements and transposons. From fission yeast to mammals, heterochromatin assembly at DNA repeats ...
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