Genome-Wide Open Chromatin Methylome Profiles in Colorectal Cancer
Biomolecules, 2020 The methylome of open chromatins was investigated in colorectal cancer (CRC) to explore cancer-specific methylation and potential biomarkers. Epigenome-wide methylome of open chromatins was studied in colorectal cancer tissues using the Infinium DNA ...
Muhiddin Ishak +9 more
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A map of open chromatin in human pancreatic islets [PDF]
Nature Genetics, 2010 Tissue-specific transcriptional regulation is central to human disease1. To identify regulatory DNA active in human pancreatic islets, we profiled chromatin by FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements)2–4 coupled with high-throughput sequencing. We identified ~80,000 open chromatin sites.
Kyle J Gaulton +2 more
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Open chromatin reveals the functional maize genome [PDF]
Proceedings of the National Academy of Sciences of the United States of America, 2016 Significance The maize genome, similar to those of most plant genomes, is 98% noncoding. Much of the remainder is a vast desert of repeats that remain repressed throughout the cell cycle. The plant cell orchestrates its complex activities by restricting access to functional regions with an open chromatin configuration.
Eli Rodgers-Melnick +2 more
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OCRClassifier: integrating statistical control chart into machine learning framework for better detecting open chromatin regions [PDF]
Frontiers in GeneticsOpen chromatin regions (OCRs) play a crucial role in transcriptional regulation and gene expression. In recent years, there has been a growing interest in using plasma cell-free DNA (cfDNA) sequencing data to detect OCRs. By analyzing the characteristics
Xin Lai +6 more
doaj +2 more sources
Open Chromatin, Epigenetic Plasticity, and Nuclear Organization in Pluripotency [PDF]
Developmental Cell, 2019 Pluripotent embryonic stem cells (ESCs) are considered to have open and accessible chromatin relative to differentiated cells. However, as many studies supporting these conclusions relied on ESCs grown in serum, it has been suggested that some of these features are the result of culture conditions, particularly as more recent work using GSK3/MEK ...
Sharon Schlesinger, Eran Meshorer
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Chromatin architecture of the human genome: gene-rich domains are enriched in open chromatin fibers.
Cell, 2004 We present an analysis of chromatin fiber structure across the human genome. Compact and open chromatin fiber structures were separated by sucrose sedimentation and their distributions analyzed by hybridization to metaphase chromosomes and genomic microarrays. We show that compact chromatin fibers originate from some sites of heterochromatin (C-bands),
Gilbert, Nick +5 more
openaire +3 more sources
HiCAR is a robust and sensitive method to analyze open-chromatin-associated genome organization [PDF]
Molecular Cell, 2022 Jianhong Ou, Feng Yue, Yarui Diao
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Altered and allele-specific open chromatin landscape reveals epigenetic and genetic regulators of innate immunity in COVID-19 [PDF]
Cell Genomics, 2023 Bo-Wen Zhang, Yang Li
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Epigenetic signals that direct cell type–specific interferon beta response in mouse cells
Life Science Alliance, 2023 Preexisting cell type–specific chromatin features represent an additional regulatory layer for interferon beta response and direct binding of STAT transcription factors and gene induction. The antiviral response induced by type I interferon (IFN) via the
Markus Muckenhuber +9 more
doaj +1 more source
Mapping open chromatin in single cells [PDF]
Nature Reviews Genetics, 2015 Linda Koch, Koch Linda
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