Results 51 to 60 of about 2,028 (216)

Accurate Prediction of ecDNA in Interphase Cancer Cells using Deep Neural Networks [PDF]

ABSTRACTOncogene amplification is a key driver of cancer pathogenesis and is often mediated by extrachromosomal DNA (ecDNA). EcDNA amplifications are associated with increased pathogenicity of cancer and poorer outcomes for patients. EcDNA can be detected accurately using fluorescence in situ hybridization (FISH) when cells are arrested in metaphase ...
Utkrisht Rajkumar, Gino Prasad, Ellis J. Curtis, Ivy Tsz-Lo Wong, Xiaowei Yan, Shu Zhang, Lotte Brückner, Kristen M. Turner, Julie Wiese, Justin Wahl, Sihan Wu, Jessica Theißen, Matthias Fischer, Howard Y. Chang, Anton G. Henssen, Paul S. Mischel, Vineet Bafna   +16 more
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Safeguarding spermatogenesis from retrotransposon insertions by forming ecDNA

AbstractRetrotransposon mobilization in germline cells enables the rewriting of genetic information to drive genome innovation, species evolution, and adaptation through the generation of de novo mutations. However, uncontrolled mobilization can cause DNA breaks and genome instability, often leading to sterility.
ZZ Zhao Zhang, Lauren Tracy
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Phase separation of ecDNA aggregates establishesin-transcontact domains boosting selectiveMYCregulatory interactions [PDF]

bioRxiv, 2023
Extrachromosomal DNAs (ecDNAs) are found in the nucleus of an array of human cancer cells where they can form clusters that were associated to oncogene overexpression, as they carry genes and cis-regulatory elements.
Mattia Conte, Tommaso Matteuzzi, Andrea Esposito, Andrea M. Chiariello, Simona Bianco, Francesca Vercellone, Mario Nicodemi   +6 more
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The evolutionary dynamics of extrachromosomal DNA in human cancers [PDF]

, 2022
Oncogene amplification on extrachromosomal DNA (ecDNA) is a common event, driving aggressive tumor growth, drug resistance and shorter survival. Currently, the impact of nonchromosomal oncogene inheritance-random identity by descent-is poorly understood.
Bafna, V, Bernkopf, M, Chang, HY, Chen, CY, Erb, ML, Henssen, AG, Huang, W, Hung, KL, Lange, JT, Liu, Z, Mischel, PS, Pichugin, Y, Rajkumar, U, Rose, JC, Shi, Q, Swanton, C, Tang, J, Taschner-Mandl, S, Werner, B, Wu, S, Xie, L, Yost, KE   +21 more
core   +6 more sources

Classification of extrachromosomal circular DNA with a focus on the role of extrachromosomal DNA (ecDNA) in tumor heterogeneity and progression

Biochimica et Biophysica Acta (BBA) - Reviews on Cancer, 2020
Although the eukaryotic genome is mainly comprised of linear chromosomal DNA, genes can also be found outside of chromosomes. The unconventional presence of extrachromosomal genes is usually found to be circular, and these structures are named extrachromosomal circular DNA (eccDNA), which are often observed in cancer cells.
Zhenyu Liao, Jiang Wang, Long‐Yun Ye, Tianjiao Li, Xianjun Yu, Liang Liu   +5 more
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Small ring has big potential: insights into extrachromosomal DNA in cancer

Cancer Cell International, 2021
Recent technical advances have led to the discovery of novel functions of extrachromosomal DNA (ecDNA) in multiple cancer types. Studies have revealed that cancer-associated ecDNA shows a unique circular shape and contains oncogenes that are more ...
Yihao Wang, Rui Huang, Guopei Zheng, Jianfeng Shen   +3 more
doaj   +1 more source

Novel insights into extrachromosomal DNA: redefining the onco-drivers of tumor progression

Journal of Experimental & Clinical Cancer Research, 2020
Extrachromosomal DNA (ecDNA), gene-encoding extrachromosomal particles of DNA, is often present in tumor cells. Recent studies have revealed that oncogene amplification via ecDNA is widespread across a diverse range of cancers.
Xiang Gu, Jie Yu, Peiwei Chai, Shengfang Ge, Xianqun Fan   +4 more
doaj   +1 more source

Parallel sequencing of extrachromosomal circular DNAs and transcriptomes in single cancer cells [PDF]

, 2023
Extrachromosomal DNAs (ecDNAs) are common in cancer, but many questions about their origin, structural dynamics and impact on intratumor heterogeneity are still unresolved.
Bei, Yi, Brückner, Lotte, Chamorro González, Rocío, Chang, Howard Y., Conrad, Thomas, Deubzer, Hedwig E., Dorado Garcia, Heathcliff, Eggert, Angelika, Giurgiu, Mădălina, Haase, Kerstin, Helmsauer, Konstantin, Henssen, Anton G., Hung, King L., Kasack, Katharina, Koche, Richard P., Leen, Eric van, Lodrini, Marco, Mundlos, Stefan, Rodriguez-Fos, Elias, Sauer, Sascha, Schmelz, Karin, Schulte, Johannes H., Schwarz, Roland F., Stefanova, Maria E., Stöber, Maja C., Xu, Robin   +25 more
core   +1 more source

The dynamics of extracellular DNA associates with treatment response in patients with rheumatoid arthritis

Scientific Reports, 2022
Rheumatoid arthritis (RA) as a chronic autoimmune inflammatory disease increases extracellular DNA (ecDNA). Our previous study has shown that anti-inflammatory treatment reduces ecDNA, but it is unclear whether there is an association with treatment ...
Kristína Macáková, Júlia Illésová, Vanda Mlynáriková, Alexandra Lesayová, Barbora Konečná, Barbora Vlková, Peter Celec, Emöke Šteňová   +7 more
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ViFi: accurate detection of viral integration and mRNA fusion reveals indiscriminate and unregulated transcription in proximal genomic regions in cervical cancer. [PDF]

, 2018
The integration of viral sequences into the host genome is an important driver of tumorigenesis in many viral mediated cancers, notably cervical cancer and hepatocellular carcinoma.
Bafna, Vineet, Deshpande, Viraj, Luebeck, Jens, Mischel, Paul S, Nguyen, Nam-Phuong D   +4 more
core   +1 more source