Results 131 to 140 of about 2,326 (226)

Engineered extrachromosomal oncogene amplifications promote tumorigenesis [PDF]

Focal gene amplifications are among the most common cancer-associated mutations1 but have proven challenging to engineer in primary cells and model organisms.
Antonescu, Cristina R., Bafna, Vineet, Cendon-Florez, Ylenia, Chang, Howard Y., Chen, Kevin, Dameracharla, Bhargavi, Gao, Rui, Gluchowska, Katarzyna M., Grimm, Felix, Jiao, Ziqi, La Rocca, Gaspare, Lisi, Marta, Luebeck, Jens, Mastroleo, Chiara, Mischel, Paul S., Mishra, Tanmay, Nguyen, Hieu H. M., Ozimek, Mateusz M., Pradella, Davide, Pritykin, Yuri, Sigel, Carlie, Sun, Eric G., Ventura, Andrea, Weigl, Moritz, Yao, Melissa A., Zhang, Minsi, Zhang, Shu, Zhao, Zhengqiao, Zolli, Andrea Alice   +28 more
core   +1 more source

Reconstructing extrachromosomal DNA structural heterogeneity from long-read sequencing data using Decoil [PDF]

Circular extrachromosomal DNA (ecDNA) is a form of oncogene amplification found across cancer types and associated with poor outcome in patients. ecDNA can be structurally complex and contain rearranged DNA sequences derived from multiple chromosome ...
Brueckner, Lotte, Chamorro Gonzalez, Rocio, Euskirchen, Philipp, Giurgiu, Madalina, Haase, Kerstin, Hartebrodt, Anne, Helmsauer, Konstantin, Henssen, Anton G, Koche, Richard P, Krienelke-Szymansky, Annabell, Reinert, Knut, Rodriguez-Fos, Elias, Wittstruck, Nadine   +12 more
core  

Abstracts

Molecular Oncology, Volume 19, Issue S1, Page 1-940, June 2025.
Abstracts submitted to the ‘EACR 2025 Congress: Innovative Cancer Science’, from 16–19 June 2025 and accepted by the Congress Organising Committee are published in this Supplement of Molecular Oncology, an affiliated journal of the European Association for Cancer Research (EACR).
wiley   +1 more source

The prevalence, mutagenesis and evolution of focal copy number amplifications and extrachromosomal DNA in cancer [PDF]

Extrachromosomal DNA (ecDNA) is a circular genomic structural variant in tumour cells that facilitate high levels of oncogene focal copy number amplification through unequal segregation of ecDNA structures during mitosis. This contributes to intra-tumour
Bailey, Christopher
core  

Origins and impact of extrachromosomal DNA [PDF]

Extrachromosomal DNA (ecDNA) is a major contributor to treatment resistance and poor outcome for patients with cancer1,2. Here we examine the diversity of ecDNA elements across cancer, revealing the associated tissue, genetic and mutational contexts.
Bafna, Vineet, Bailey, Chris, Bentham, Robert, Chang, Howard Y, Cornish, Alex J, Dameracharla, Bhargavi, Flanagan, Adrienne M, Houlston, Richard S, Howitt, Brooke E, Hung, King L, Jamal-Hanjani, Mariam, Kanu, Nnennaya, Kittel, Jeanette, Litovchenko, Maria, Lu, Wei-Ting, Luebeck, Jens, McGranahan, Nicholas, Mischel, Paul S, Moore, David A, Nik-Zainal, Serena, Pich, Oriol, Rowan, Andrew, Salgado, Roberto, Sharma, Natasha, Stavrou, Georgia, Swanton, Charles, Thol, Kerstin, Watkins, Thomas BK, Weiser, Natasha E, Yang, SY Cindy   +29 more
core  

Integrated analyses highlight interactions between the three-dimensional genome and DNA, RNA and epigenomic alterations in metastatic prostate cancer. [PDF]

The impact of variations in the three-dimensional structure of the genome has been recognized, but solid cancer tissue studies are limited. Here, we performed integrated deep Hi-C sequencing with matched whole-genome sequencing, whole-genome bisulfite ...
Aggarwal, Rahul, Alumkal, Joshi, Arlidge, Christopher, Bootsma, Matthew, Chesner, Lisa, Dehm, Scott, Feng, Felix, Foye, Adam, Hawley, James, He, Hansen, Helzer, Kyle, Lang, Joshua, Li, Haolong, Lundberg, Arian, Lupien, Mathieu, Lynch, Molly, Moreno-Rodriguez, Thaidy, Pan, Chu, Quigley, David, Rydzewski, Nicholas, Shi, Yue, Shrestha, Raunak, Sjöström, Martin, Small, Eric, Weinstein, Alana, Wyatt, Alexander, Zhang, Meng, Zhao, Shuang, Zhou, Stanley, Zwart, Wilbert   +29 more
core   +1 more source

Long-Read Sequencing of an Advanced Cancer Cohort Resolves Rearrangements, Unravels Haplotypes, and Reveals Methylation Landscapes [PDF]

The Long-Read Personalized OncoGenomics (POG) dataset comprises a cohort of 189 patient tumors and 41 matched normal samples sequenced using the Oxford Nanopore Technologies PromethION platform.
Akbari, Vahid, Bowlby, Reanne, Chang, Glenn, Cheng, Dean, Chuah, Eric, Coope, Robin, Corbett, Richard, Csizmok, Veronika, Culibrk, Luka, Dixon, Katherine, Dupuis, John H, Fan, Jeremy, Frey, Connor, Galbraith, Andrew, Grisdale, Cameron J, Hopkins, James, Jones, Steven J M, Laskin, Janessa, Lewis, Eleanor, MacLennan, Signe, Marra, Marco A, McConechy, Melissa K, Moore, Richard A, Mungall, Andrew J, Mungall, Karen L, Nelson, Jessica M T, O\u27Neill, Kieran, Pandoh, Pawan, Paulin, Luis F, Pleasance, Erin, Porter, Vanessa, Schrader, Kasmintan A, Sedlazeck, Fritz J, Shen, Yaoqing, Smailus, Duane E, Williamson, Laura M, Wong, Tina, Yip, Stephen   +37 more
core   +2 more sources

Reviewer #2 (Public Review): Transcriptional immune suppression and upregulation of double stranded DNA damage and repair repertoires in ecDNA-containing tumors [PDF]

Miin S. Lin, Se‐Young Jo, Jens Luebeck, Howard Y. Chang, Sihan Wu, Paul S. Mischel, Vineet Bafna   +6 more
openalex   +2 more sources

Pioneering insights of extrachromosomal DNA (ecDNA) generation, action and its implications for cancer therapy [PDF]

, 2022
Ze‐Sheng Li, Bo Wang, Hao Liang, Lei Han   +3 more
openalex   +1 more source

ecDNA cargo gene modeling

, 2022
Shixiang Wang, Qi Zhao
openalex   +3 more sources