Rearrangement processes and structural variations show evidence of selection in oesophageal adenocarcinomas [PDF]
, 2022 Oesophageal adenocarcinoma (OAC) provides an ideal case study to characterize large-scale rearrangements. Using whole genome short-read sequencing of 383 cases, for which 214 had matched whole transcriptomes, we observed structural variations (SV) with a
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Optimized CRISPR-Cas9 system for efficient engineering of ecDNA in cancer cells. [PDF]
Nucleic Acids ResSugimoto Y +7 more
europepmc +2 more sources
Chromatin-associated RNA Dictates the ecDNA Interactome in the Nucleus [PDF]
, 2023 ABSTRACTExtrachromosomal DNA (ecDNA) promotes cancer by driving copy number heterogeneity and amplifying oncogenes along with functional enhancers. More recent studies suggest two additional mechanisms for further enhancing their oncogenic potential, one via forming ecDNA hubs to augment oncogene expression1and the other through acting as portable ...
Zhengyu Liang +7 more
openalex +3 more sources
Circular ecDNA promotes accessible chromatin and high oncogene expression [PDF]
Nature, 2019 Oncogenes are commonly amplified on particles of extrachromosomal DNA (ecDNA) in cancer1,2, but our understanding of the structure of ecDNA and its effect on gene regulation is limited. Here, by integrating ultrastructural imaging, long-range optical mapping and computational analysis of whole-genome sequencing, we demonstrate the structure of circular
Sihan Wu +32 more
semanticscholar +5 more sources
Gene therapy enhances deoxyribonuclease I treatment in antimyeloperoxidase glomerulonephritis [PDF]
JCI InsightExtracellular DNA (ecDNA) released from injured and dying cells powerfully induces injurious inflammation. In this study we define the role of ecDNA in systemic vasculitis affecting the kidney, using human kidney biopsies and murine models of ...
Anne Cao Le +13 more
doaj +2 more sources
MEDB-33. The landscape of ecDNA in medulloblastoma [PDF]
Neuro-Oncology, 2022 Abstract Extrachromosomal circular DNA (ecDNA) is an important driver of aggressive cancers, including medulloblastoma (MB), the most common malignant pediatric brain tumor. To assess the clinical importance of ecDNA in MB, we applied computational methods to detect ecDNA in the genomes of a cohort of 468 MB patients and 31 MB model ...
Owen Chapman +6 more
openalex +2 more sources
Extracellular DNA Correlates with Intestinal Inflammation in Chemically Induced Colitis in Mice
Cells, 2021 Circulating extracellular DNA (ecDNA) is known to worsen the outcome of many diseases. ecDNA released from neutrophils during infection or inflammation is present in the form of neutrophil extracellular traps (NETs).
Martin Maronek +13 more
doaj +1 more source
Extracellular DNA concentrations in various aetiologies of acute kidney injury
Scientific Reports, 2022 Extracellular DNA (ecDNA) in plasma is a non-specific biomarker of tissue damage. Urinary ecDNA, especially of mitochondrial origin, is a potential non-invasive biomarker of kidney damage.
Alexandra Gaál Kovalčíková +10 more
doaj +1 more source
Scientific Reports, 2022 Extrachromosomal DNA (ecDNA) is a type of circular and tumor specific genetic element. EcDNA has been reported to display open chromatin structure, facilitate oncogene amplification and genetic material unequal segregation, and is associated with poor ...
Tao Wu +7 more
doaj +1 more source
Dynamics of Plasma and Urinary Extracellular DNA in Acute Kidney Injury [PDF]
, 2022 Early and reliable markers of acute kidney injury (AKI) are essential. One such candidate marker of tissue damage is extracellular DNA (ecDNA). The aim of our present study is to describe the unknown dynamics of ecDNA in an animal model of AKI.
Babickova, Janka +6 more
core +1 more source