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Reconstitution of eukaryotic chromosomes and manipulation of DNA N6-methyladenine alters chromatin and gene expression

https://doi.org/10.1101/475384
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Chromatin structure of the molecular ends of oxytricha macronuclear DNA: phased nucleosomes and a telomeric complex
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Dnmt1-Independent CG Methylation Contributes to Nucleosome Positioning in Diverse Eukaryotes
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N6-Methyldeoxyadenosine Marks Active Transcription Start Sites in Chlamydomonas
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N6-Methyladenine DNA Modification in Drosophila
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N6-Methyladenine DNA Modification in the Human Genome
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Active N6-Methyladenine Demethylation by DMAD Regulates Gene Expression by Coordinating with Polycomb Protein in Neurons
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Preparation of nucleosome core particle from recombinant histones
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ACF, an ISWI-Containing and ATP-Utilizing Chromatin Assembly and Remodeling Factor
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Tetrahymena Histone Acetyltransferase A: A Homolog to Yeast Gcn5p Linking Histone Acetylation to Gene Activation
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Crystal Structure of the Oxytricha nova Telomere End Binding Protein Complexed with Single Strand DNA
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Methylation of Histone H3 at Lysine 9 Targets Programmed DNA Elimination in Tetrahymena
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DNA methylation on N6-adenine in mammalian embryonic stem cells
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Structural basis of N6-adenosine methylation by the METTL3–METTL14 complex
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A two-state activation mechanism controls the histone methyltransferase Suv39h1
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Ubiquitin utilizes an acidic surface patch to alter chromatin structure
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Abundant DNA 6mA methylation during early embryogenesis of zebrafish and pig
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Widespread adenine N6-methylation of active genes in fungi
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Fast gapped-read alignment with Bowtie 2
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Protocol for micro-purification, enrichment, pre-fractionation and storage of peptides for proteomics using StageTips
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Understanding nucleosome dynamics and their links to gene expression and DNA replication
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DNA N6-methyladenine: a new epigenetic mark in eukaryotes?
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Identification of methylated deoxyadenosines in vertebrates reveals diversity in DNA modifications
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DNA N6-methyladenine is dynamically regulated in the mouse brain following environmental stress
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Identification and analysis of adenine N6-methylation sites in the rice genome
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Macronuclear DNA of the hypotrichous ciliate Oxytricha fallax
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Phosphorylation of histone H3 at serine 10 is correlated with chromosome condensation during mitosis and meiosis in Tetrahymena
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Methylation of histone H3 at lysine 4 is highly conserved and correlates with transcriptionally active nuclei in Tetrahymena
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Nucleosome Positioning Is Independent of Histone H1in Vivo
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[6N]METHYL ADENINE IN THE NUCLEAR DNA OF A EUCARYOTE, TETRAHYMENA PYRIFORMIS
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MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization
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CD-HIT Suite: a web server for clustering and comparing biological sequences
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Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
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Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements
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aLeaves facilitates on-demand exploration of metazoan gene family trees on MAFFT sequence alignment server with enhanced interactivity
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CAGEr: precise TSS data retrieval and high-resolution promoterome mining for integrative analyses
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InterPro in 2017—beyond protein family and domain annotations
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N6-adenine DNA methylation is associated with the linker DNA of H2A.Z-containing well-positioned nucleosomes in Pol II-transcribed genes in Tetrahymena
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RNAi-dependent H3K27 methylation is required for heterochromatin formation and DNA elimination in Tetrahymena
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High-fidelity promoter profiling reveals widespread alternative promoter usage and transposon-driven developmental gene expression
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DNA-guided establishment of nucleosome patterns within coding regions of a eukaryotic genome
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Sequence specificity of DNA adenine methylase in the protozoan Tetrahymena thermophila
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Nucleosome Spacing Generated by ISWI and CHD1 Remodelers Is Constant Regardless of Nucleosome Density
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Deoxyribonucleic acid methylation and chromatin organization in Tetrahymena thermophila.
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The DNA of ciliated protozoa
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DNA Binding of the Cell Cycle Transcriptional Regulator GcrA Depends on N6-Adenosine Methylation in Caulobacter crescentus and Other Alphaproteobacteria
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Transcription-Independent Functions of an RNA Polymerase II Subunit, Rpb2, During Genome Rearrangement in the Ciliate, Oxytricha trifallax
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Structural insights into the molecular mechanism of the m6A writer complex
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