Not logged in Long-read sequencing of an advanced cancer cohort resolves rearrangements, unravels haplotypes, and reveals methylation landscapes O'Neill, Kieran; Pleasance, Erin; Fan, Jeremy; Akbari, Vahid; Chang, Glenn; Dixon, Katherine; Csizmok, Veronika; MacLennan, Signe; Porter, Vanessa; Galbraith, Andrew; Grisdale, Cameron J.; Culibrk, Luka; Dupuis, John H.; Corbett, Richard; Hopkins, James; Bowlby, Reanne; Pandoh, Pawan; Smailus, Duane E.; Cheng, Dean; Wong, Tina; Frey, Connor; Shen, Yaoqing; Lewis, Eleanor; Paulin, Luis F.; Sedlazeck, Fritz J.; Nelson, Jessica M. T.; Chuah, Eric; Mungall, Karen L.; Moore, Richard A.; Coope, Robin; Mungall, Andrew J.; McConechy, Melissa K.; Williamson, Laura M.; Schrader, Kasmintan A.; Yip, Stephen; Marra, Marco A.; Laskin, Janessa; Jones, Steven J. M. Share Save
Transcriptome-based assessment of immune infiltration for molecular selection of pediatric patients with solid tumors for combination immune checkpoint inhibitor therapy Shen, Yaoqing; Mayoh, Chelsea; Nabbi, Arash; Santiago, Raoul; Bianco, Stephanie; Bancarz, Iain R.; Williamson, Laura; Corbett, Richard; Krekhno, Zakhar; Davidson, Scott; Fortuna, Alexander; Yuki, Kyoko E.; Connolly, Denise; Morgenstern, Daniel; Ekert, Paul G.; Shlien, Adam; Jones, Steven J. M.; Deyell, Rebecca J.; Cohen-Gogo, Sarah Share Save
Whole-slide laser microdissection for tumour enrichment Coope, Robin J. N.; Schlosser, Colin; Corbett, Richard D.; Pleasance, Stephen; Tessier-Cloutier, Basile; Pandoh, Pawan; Kirk, Heather; Haile, Simon; Zhao, Yongjun; Mungall, Andrew J.; Marra, Marco A. Share Save
Pan-cancer analysis of advanced patient tumors reveals interactions between therapy and genomic landscapes Pleasance, Erin; Titmuss, Emma; Williamson, Laura; Kwan, Harwood; Culibrk, Luka; Zhao, Eric Y.; Dixon, Katherine; Fan, Kevin; Bowlby, Reanne; Jones, Martin R.; Shen, Yaoqing; Grewal, Jasleen K.; Ashkani, Jahanshah; Wee, Kathleen; Grisdale, Cameron J.; Thibodeau, My Linh; Bozoky, Zoltan; Pearson, Hillary; Majounie, Elisa; Vira, Tariq; Shenwai, Reva; Mungall, Karen L.; Chuah, Eric; Davies, Anna; Warren, Mya; Reisle, Caralyn; Bonakdar, Melika; Taylor, Gregory A.; Csizmok, Veronika; Chan, Simon K.; Zong, Zusheng; Bilobram, Steve; Muhammadzadeh, Amir; D'Souza, Darryl; Corbett, Richard D.; MacMillan, Daniel; Carreira, Marcus; Choo, Caleb; Bleile, Dustin; Sadeghi, Sara; Zhang, Wei; Wong, Tina; Cheng, Dean; Brown, Scott D.; Holt, Robert A.; Moore, Richard A.; Mungall, Andrew J.; Zhao, Yongjun; Nelson, Jessica; Fok, Alexandra; Ma, Yussanne; Lee, Michael K. C.; Lavoie, Jean-Michel; Mendis, Shehara; Karasinska, Joanna M.; Deol, Balvir; Fisic, Ana; Schaeffer, David F.; Yip, Stephen; Schrader, Kasmintan; Regier, Dean A.; Weymann, Deirdre; Chia, Stephen; Gelmon, Karen; Tinker, Anna; Sun, Sophie; Lim, Howard; Renouf, Daniel J.; Laskin, Janessa; Jones, Steven J. M.; Marra, Marco A. Share Save
Sources of erroneous sequences and artifact chimeric reads in next generation sequencing of genomic DNA from formalin-fixed paraffin-embedded samples Haile, Simon; Corbett, Richard D.; Bilobram, Steve; Bye, Morgan H.; Kirk, Heather; Pandoh, Pawan; Trinh, Eva; MacLeod, Tina; McDonald, Helen; Bala, Miruna; Miller, Diane; Novik, Karen; Coope, Robin J.; Moore, Richard A.; Zhao, Yongjun; Mungall, Andrew J.; Ma, Yussanne; Holt, Rob A.; Jones, Steven J.; Marra, Marco A. Share Save
Clinical application of whole genome and transcriptome sequencing in cancer care Shen, Yaoqing; Jones, Martin R.; Pleasance, Erin; Bonakdar, Melika; Ch'ng, Carolyn; Reisle, Caralyn; Williamson, Laura; Majounie, Elisa; Taylor, Greg; Chan, Simon; Pierce, Brandon; Zhang, Wei; Muhammadzadeh, Amir; Zhao, Eric Y.; Bleile, Dustin; Mungall, Karen; Thiessen, Nina; Chuah, Eric; Wong, Tina; Corbett, Richard; Ma, Yussanne; Moore, Richard A.; Mungall, Andrew J.; Zhao, Yongjun; Yip, Stephen; Lee, Anna F.; Rassekh, Rod; Deyell, Rebecca; Lim, Howard; Renouf, Daniel; Roscoe, Robyn; Jones, Steven J. M.; Laskin, Janessa; Marra, Marco A. Share Save
Homologous Recombination Deficiency and Platinum-Based Therapy Outcomes in Advanced Breast Cancer Zhao, Eric Y.; Shen, Yaoqing; Pleasance, Erin; Kasaian, Katayoon; Leelakumari, Sreeja; Jones, Martin; Bose, Pinaki; Ch'ng, Carolyn; Reisle, Caralyn; Eirew, Peter; Corbett, Richard; Mungall, Karen L.; Thiessen, Nina; Ma, Yussanne; Schein, Jacqueline E.; Mungall, Andrew J.; Zhao, Yongjun; Moore, Richard A.; Den Brok, Wendie; Wilson, Sheridan; Villa, Diego; Shenkier, Tamara; Lohrisch, Caroline; Chia, Stephen; Yip, Stephen; Gelmon, Karen; Lim, Howard; Renouf, Daniel; Sun, Sophie; Schrader, Kasmintan A.; Young, Sean; Bosdet, Ian; Karsan, Aly; Laskin, Janessa; Marra, Marco A.; Jones, Steven J. M. Share Save
Increasing quality, throughput and speed of sample preparation for strand-specific messenger RNA sequencing Haile, Simon; Corbett, Richard D.; MacLeod, Tina; Bilobram, Steve; Smailus, Duane; Tsao, Philip; Kirk, Heather; McDonald, Helen; Pandoh, Pawan; Bala, Miruna; Hirst, Martin; Miller, Diane; Moore, Richard A.; Mungall, Andrew J.; Schein, Jacquie; Coope, Robin J.; Ma, Yussanne; Zhao, Yongjun; Holt, Rob A.; Jones, Steven J.; Marra, Marco A. Share Save
A somatic reference standard for cancer genome sequencing Craig, David W.; Nasser, Sara; Corbett, Richard; Chan, Simon K.; Murray, Lisa; Legendre, Christophe; Tembe, Waibhav; Adkins, Jonathan; Kim, Nancy; Wong, Shukmei; Baker, Angela; Enriquez, Daniel; Pond, Stephanie; Pleasance, Erin; Mungall, Andrew J.; Moore, Richard A.; McDaniel, Timothy; Ma, Yussanne; Jones, Steven J. M.; Marra, Marco A.; Carpten, John D.; Liang, Winnie S. Share Save
Bioinformatic analyses approaches for personalized oncogenomics Kasaian, Katayoon; Shen, Yaoqing; Leelakumari, Sreeja; Eirew, Peter; Li, Yvonne Y.; Pleasance, Erin; Corbett, Richard; Mungall, Karen L.; Schein, Jacquie; Mungall, Andrew J.; Zhao, Yongjun; Moore, Richard A.; Yip, Stephen; Gelmon, Karen; Lim, Howard; Renouf, Daniel; Roscoe, Robyn; Ma, Yussanne; Marra, Marco A.; Laskin, Janessa; Jones, Steven J. Share Save
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Barnacle: detecting and characterizing tandem duplications and fusions in transcriptome assemblies Swanson, Lucas; Robertson, Gordon; Mungall, Karen L.; Butterfield, Yaron S.; Chiu, Readman; Corbett, Richard D.; Docking, T. Roderick; Hogge, Donna; Jackman, Shaun D.; Moore, Richard A.; Mungall, Andrew J.; Nip, Ka Ming; Parker, Jeremy D. K.; Qian, Jenny Qing; Raymond, Anthony; Sung, Sandy; Tam, Angela; Thiessen, Nina; Varhol, Richard; Wang, Sherry; Yorukoglu, Deniz; Zhao, YongJun; Hoodless, Pamela A.; Sahinalp, S. Cenk; Karsan, Aly; Birol, Inanc Share Save
Complete genomic landscape of a recurring sporadic parathyroid carcinoma Kasaian, Katayoon; Wiseman, Sam M.; Thiessen, Nina; Mungall, Karen L.; Corbett, Richard D.; Qian, Jenny Q.; Nip, Ka Ming; He, Ann; Tse, Kane; Chuah, Eric; Varhol, Richard J.; Pandoh, Pawan; McDonald, Helen; Zeng, Thomas; Tam, Angela; Schein, Jacquie; Birol, Inanc; Mungall, Andrew J.; Moore, Richard A.; Zhao, Yongjun; Hirst, Martin; Marra, Marco A.; Walker, Blair A.; Jones, Steven J. M. Share Save
Genome analysis informs chemotherapy decision-making in patients with advanced malignancies. Laskin, Janessa J.; Gelmon, Karen; Lim, Howard; Renouf, Daniel; Yip, Stephen; Huntsman, David; Tinker, Anna; Ho, Cheryl; Pleasance, Erin D.; Li, Yvonne; Shen, Yaoqing; Kasaian, Katavoon; Corbett, Richard; Mungall, Karen; Zhao, Yongjun; Mungall, Andy; Schein, Jacquie; Roscoe, Robyn; Jones, Steven; Marra, Marco Share Save
Genomic Analysis of Non-Hodgkin Lymphomas Reveals Mutations in Chromatin Remodelling Genes Mendez-Lago, M.; Morin, R. D.; Mungall, A. J.; Goya, R.; Trinh, D. L.; Corbett, R.; Rogic, S.; Gascoyne, R. D.; Connors, J. M.; Marra, M. A. Share Save
Concurrent CIC mutations, IDH mutations, and 1p/19q loss distinguish oligodendrogliomas from other cancers Yip, Stephen; Butterfield, Yaron S.; Morozova, Olena; Chittaranjan, Suganthi; Blough, Michael D.; An, Jianghong; Birol, Inanc; Chesnelong, Charles; Chiu, Readman; Chuah, Eric; Corbett, Richard; Docking, Rod; Firme, Marlo; Hirst, Martin; Jackman, Shaun; Karsan, Aly; Li, Haiyan; Louis, David N.; Maslova, Alexandra; Moore, Richard; Moradian, Annie; Mungall, Karen L.; Perizzolo, Marco; Qian, Jenny; Roldan, Gloria; Smith, Eric E.; Tamura-Wells, Jessica; Thiessen, Nina; Varhol, Richard; Weiss, Samuel; Wu, Wei; Young, Sean; Zhao, Yongjun; Mungall, Andrew J.; Jones, Steven J. M.; Morin, Gregg B.; Chan, Jennifer A.; Cairncross, J. Gregory; Marra, Marco A. Share Save
Whole genome and transcriptome sequencing defines the spectrum of somatic changes in high-risk neuroblastoma Morozova, Olena; Birol, Inanc; Corbett, Richard; Mungall, Karen; Attiyeh, Edward F.; Asgharzadeh, Shahab; Zhao, Yongjun; Moore, Richard A.; Hirst, Martin; Jones, Steven; Hogarty, Michael D.; Diskin, Sharon; Mosse, Yael P.; Diamond, Maura; Sposto, Richard; Ji, Lingyun; Gerhard, Daniela S.; Smith, Malcolm A.; Khan, Javed; Seeger, Robert C.; Marra, Marco A.; Maris, John M. Share Save
De novo assembly and analysis of RNA-seq data Robertson, Gordon; Schein, Jacqueline; Chiu, Readman; Corbett, Richard; Field, Matthew; Jackman, Shaun D.; Mungall, Karen; Lee, Sam; Okada, Hisanaga Mark; Qian, Jenny Q.; Griffith, Malachi; Raymond, Anthony; Thiessen, Nina; Cezard, Timothee; Butterfield, Yaron S.; Newsome, Richard; Chan, Simon K.; She, Rong; Varhol, Richard; Kamoh, Baljit; Prabhu, Anna-Liisa; Tam, Angela; Zhao, YongJun; Moore, Richard A.; Hirst, Martin; Marra, Marco A.; Jones, Steven J. M.; Hoodless, Pamela A.; Birol, Inanc Share Save
Alternative expression analysis by RNA sequencing Griffith, Malachi; Griffith, Obi L.; Mwenifumbo, Jill; Goya, Rodrigo; Morrissy, A. Sorana; Morin, Ryan D.; Corbett, Richard; Tang, Michelle J.; Hou, Ying-Chen; Pugh, Trevor J.; Robertson, Gordon; Chittaranjan, Suganthi; Ally, Adrian; Asano, Jennifer K.; Chan, Susanna Y.; Li, Haiyan I.; McDonald, Helen; Teague, Kevin; Zhao, Yongjun; Zeng, Thomas; Delaney, Allen; Hirst, Martin; Morin, Gregg B.; Jones, Steven J. M.; Tai, Isabella T.; Marra, Marco A. Share Save
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