PCSD: a plant chromatin state database
Y Liu, T Tian, K Zhang, Q You, H Yan… - Nucleic Acids …, 2018 - academic.oup.com
Genome-wide maps of chromatin states have become a powerful representation of genome
annotation and regulatory activity. We collected public and in-house plant epigenomic data …
annotation and regulatory activity. We collected public and in-house plant epigenomic data …
The Functional Topography of the Arabidopsis Genome Is Organized in a Reduced Number of Linear Motifs of Chromatin States
J Sequeira-Mendes, I Aragüez, R Peiró… - The Plant …, 2014 - academic.oup.com
Chromatin is of major relevance for gene expression, cell division, and differentiation. Here,
we determined the landscape of Arabidopsis thaliana chromatin states using 16 features …
we determined the landscape of Arabidopsis thaliana chromatin states using 16 features …
Chromatin indexing in Arabidopsis: an epigenomic tale of tails and more
Packaging DNA into chromatin is pivotal for the regulation of genome activity in eukaryotes.
This chromatin-level control relies on a range of histone modifications and variants …
This chromatin-level control relies on a range of histone modifications and variants …
Integrative epigenomic mapping defines four main chromatin states in Arabidopsis
Post‐translational modification of histones and DNA methylation are important components
of chromatin‐level control of genome activity in eukaryotes. However, principles governing …
of chromatin‐level control of genome activity in eukaryotes. However, principles governing …
Delineation of metabolic gene clusters in plant genomes by chromatin signatures
N Yu, HW Nützmann, JT MacDonald… - Nucleic Acids …, 2016 - academic.oup.com
Plants are a tremendous source of diverse chemicals, including many natural product-
derived drugs. It has recently become apparent that the genes for the biosynthesis of …
derived drugs. It has recently become apparent that the genes for the biosynthesis of …
Identification of cis-regulatory elements by chromatin structure
Z Lu, WA Ricci, RJ Schmitz, X Zhang - Current opinion in plant biology, 2018 - Elsevier
Highlights•cis-regulatory elements are enriched within accessible chromatin regions
(ACRs).•Sequence variation within ACRs disproportionately affects transcription.• …
(ACRs).•Sequence variation within ACRs disproportionately affects transcription.• …
3D chromatin architecture of large plant genomes determined by local A/B compartments
The spatial organization of the genome plays an important role in the regulation of gene
expression. However, the core structural features of animal genomes, such as topologically …
expression. However, the core structural features of animal genomes, such as topologically …
Genome-wide analysis of local chromatin packing in Arabidopsis thaliana
The spatial arrangement of interphase chromosomes in the nucleus is important for gene
expression and genome function in animals and in plants. The recently developed Hi-C …
expression and genome function in animals and in plants. The recently developed Hi-C …
Tissue‐specific Hi‐C analyses of rice, foxtail millet and maize suggest non‐canonical function of plant chromatin domains
Chromatins are not randomly packaged in the nucleus and their organization plays
important roles in transcription regulation, which is best studied in the mammalian models …
important roles in transcription regulation, which is best studied in the mammalian models …
Genome-Wide Identification of Regulatory DNA Elements and Protein-Binding Footprints Using Signatures of Open Chromatin in Arabidopsis
Gene expression and regulation in eukaryotes is controlled by orchestrated binding of
regulatory proteins, including both activators and repressors, to promoters and other cis …
regulatory proteins, including both activators and repressors, to promoters and other cis …