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Hidewaki Nakagawa

a number of cancer genomes. GWAS, whole-genome sequencing (WGS), whole exome sequencing (WES), and RNA sequencing (RNA-Seq) have now been conducted for many types of cancer genomes worldwide, including the International Cancer Genome Consortium (ICGC

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Eleanor L Woodward, Andrea Biloglav, Naveen Ravi, Minjun Yang, Lars Ekblad, Johan Wennerberg and Kajsa Paulsson

investigated the genetic landscape of ATC cell lines using SNP array analysis, RNA sequencing and whole exome sequencing (WES). We found that ATC cell lines display highly complex genomes, with multiple breakpoints and large variation in copy numbers. We

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Yuji Ikeda, Kazuma Kiyotani, Poh Yin Yew, Taigo Kato, Kenji Tamura, Kai Lee Yap, Sarah M Nielsen, Jessica L Mester, Charis Eng, Yusuke Nakamura and Raymon H Grogan

whole-exome sequencing. Materials and methods Samples The study cohort consisted of 14 women known to have both primary breast and thyroid cancer malignancies. They were identified from a cohort of study participants who consented to participate in

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Trisha Dwight, Aidan Flynn, Kaushalya Amarasinghe, Diana E Benn, Richard Lupat, Jason Li, Daniel L Cameron, Annette Hogg, Shiva Balachander, Ida L M Candiloro, Stephen Q Wong, Bruce G Robinson, Anthony T Papenfuss, Anthony J Gill, Alexander Dobrovic, Rodney J Hicks, Roderick J Clifton-Bligh and Richard W Tothill

metastatic PCs with elevated TERT expression and using whole genome sequencing (WGS) identified genomic rearrangements that led to super-enhancer positioning proximal to the TERT promoter in two tumors. Materials and methods Patients and samples

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Annunziata Di Domenico, Tabea Wiedmer, Ilaria Marinoni and Aurel Perren

, Jiao et al . 2011 ). TP53 mutations are rare in PanNET (3%) and found mainly in G3 NEC and rarely G3 NET ( Jiao et al . 2011 , Scarpa et al . 2017 ). A recent whole genome sequencing study in 98 PanNET confirmed mutations in mTOR pathway, 15% of

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Rodrigo A Toledo, Roxanne Hatakana, Delmar M Lourenço Jr, Susan C Lindsey, Cleber P Camacho, Marcio Almeida, José V Lima Jr, Tomoko Sekiya, Elena Garralda, Michel S Naslavsky, Guilherme L Yamamoto, Monize Lazar, Osorio Meirelles, Tiago J P Sobreira, Maria Lucia Lebrao, Yeda A O Duarte, John Blangero, Mayana Zatz, Janete M Cerutti, Rui M B Maciel and Sergio P A Toledo

sequencing (Applied Biosystems) was employed to sequence the reaction products, and the samples were run on an ABI Prism 3130xl – Genetic Analyzer (Applied Biosystems). Whole-exome and whole-genome sequencing Whole-exome sequence data were generated using

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Tirtha K Das and Ross L Cagan

RET gene fusion in lung adenocarcinoma revealed from whole-genome and transcriptome sequencing . Genome Research 22 436 – 445 . ( https://doi.org/10.1101/gr.133645.111 ) 10.1101/gr.133645.111 22194472 Khoo P Allan K Willoughby L Brumby AM

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Kelly Brewer, Jessica Costa-Guda and Andrew Arnold

al. 1998 , Farnebo et al. 1999 , Kytola et al. 2000 , Hunt et al. 2005 , Sulaiman et al. 2012 b , Costa-Guda et al. 2013 b ). Whole genome and whole exome sequencing analyses have thus far failed to uncover recurrently altered

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Jan P Dumanski, Chiara Rasi, Peyman Björklund, Hanna Davies, Abir S Ali, Malin Grönberg, Staffan Welin, Halfdan Sorbye, Henning Grønbæk, Janet L Cunningham, Lars A Forsberg, Lars Lind, Erik Ingelsson, Peter Stålberg, Per Hellman and Eva Tiensuu Janson

: a consensus proposal including a grading system. Virchows Arch 2006, 449:395–401; d abbreviations: WGS, whole-genome sequencing. WES, whole-exome sequencing. The number in parentheses denotes the read depth of the NGS experiments. The coverage was

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M Bullock, C O'Neill, A Chou, A Clarkson, T Dodds, C Toon, M Sywak, S B Sidhu, L W Delbridge, B G Robinson, D L Learoyd, D Capper, A von Deimling, R J Clifton-Bligh and A J Gill

Biosystems, Foster City, CA, USA) (service provided by Australian Genome Research Facility, Sydney, Australia). Discordant cases In cases where IHC and sequencing were discordant, both tests were initially repeated on the same sample and massive parallel