Results 131 to 140 of about 2,028 (216)

65. Insights into the genetic heterogeneity of glioblastoma: gene amplification in ecDNA and HSR

, 2023
Inés Martín Barrio, Bo Zhao, Lingqun Ye, Xiaojun Liu, Peter Huc Awdhesh Kalia, Yonathan Lissanu, Manjunath Nimmakayalu, Kadir C. Akdemir   +7 more
openalex   +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

ecDNA machine learning modeling

, 2023
Shixiang Wang, Qi Zhao
openalex   +2 more sources

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

Extrachromosomal DNA : New Players in Oncology

Asian Journal of Medical Sciences
DNA that is found outside the main chromosomes in a cell's nucleus is known as extrachromosomal DNA. This type of DNA is not part of the standard 23 pairs of chromosomes in humans and instead exists as standalone circular or linear DNA structures. Unlike
Ruby Dhar , Arun Kumar , Subhradip Karmakar   +2 more
doaj   +1 more source

3D genomic analysis reveals novel enhancer-hijacking caused by complex structural alterations that drive oncogene overexpression

Nature Communications
Cancer genomes are composed of many complex structural alterations on chromosomes and extrachromosomal DNA (ecDNA), making it difficult to identify non-coding enhancer regions that are hijacked to activate oncogene expression.
Katelyn L. Mortenson, Courtney Dawes, Emily R. Wilson, Nathan E. Patchen, Hailey E. Johnson, Jason Gertz, Swneke D. Bailey, Yang Liu, Katherine E. Varley, Xiaoyang Zhang   +9 more
doaj   +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  

Characterization and integrated analysis of extrachromosomal DNA amplification in hematological malignancies

Neoplasia: An International Journal for Oncology Research
The study of extrachromosomal DNA (ecDNA), an element existing beyond classical chromosomes, contributes to creating a more comprehensive map of the cancer genome.
Hao Zhang, Bei Liu, Juan Cheng, Zijian Li, Mingfeng Jia, Ming Li, Long Zhao, Lina Wang, Yaming Xi   +8 more
doaj  

ecDNA within tumors: a new mechanism that drives tumor heterogeneity and drug resistance [PDF]

Signal Transduction and Targeted Therapy, 2020
Xixi Zeng, Maoping Wan, Jianmin Wu
openaire   +4 more sources

Intercellular extrachromosomal DNA copy-number heterogeneity drives neuroblastoma cell state diversity

Cell Reports
Summary: Neuroblastoma exhibits significant inter- and intra-tumor genetic heterogeneity and varying clinical outcomes. Extrachromosomal DNAs (ecDNAs) may drive this heterogeneity by independently segregating during cell division, leading to rapid ...
Maja C. Stöber, Rocío Chamorro González, Lotte Brückner, Thomas Conrad, Nadine Wittstruck, Annabell Szymansky, Angelika Eggert, Johannes H. Schulte, Richard P. Koche, Anton G. Henssen, Roland F. Schwarz, Kerstin Haase   +11 more
doaj