An Integrated Genomics and Clinical Resource for Data-Driven Health Services Policy and Practice Decisionmaking

by Mary Mcbride, Samuel Aparicio, John Spinelli, Scott Tyldesley
Published 2017-04-01

Ubiquitin-mediated DNA damage response is synthetic lethal with G-quadruplex stabilizer CX-5461

by Tehmina Masud, Charles Soong, Hong Xu, Justina Biele, Saelin Bjornson, Steven McKinney, Samuel Aparicio
Published 2021-05-01

Solution NMR structure and histone binding of the PHD domain of human MLL5.

by Alexander Lemak, Adelinda Yee, Hong Wu, Damian Yap, Hong Zeng, Ludmila Dombrovski, Scott Houliston, Samuel Aparicio, Cheryl H Arrowsmith
Published 2013-01-01

Correction: A Novel SND1-BRAF Fusion Confers Resistance to c-Met Inhibitor PF-04217903 in GTL16 Cells though MAPK Activation

by Nathan V. Lee, Maruja E. Lira, Adam Pavlicek, Jingjing Ye, Dana Buckman, Shubha Bagrodia, Sreesha P. Srinivasa, Yongjun Zhao, Samuel Aparicio, Paul A. Rejto, James G. Christensen, Keith A. Ching
Published 2012-01-01

Correction: A Novel SND1-BRAF Fusion Confers Resistance to c-Met Inhibitor PF-04217903 in GTL16 Cells though MAPK Activation.

by Nathan V. Lee, Maruja E. Lira, Adam Pavlicek, Jingjing Ye, Dana Buckman, Shubha Bagrodia, Sreesha P. Srinivasa, Yongjun Zhao, Samuel Aparicio, Paul A. Rejto, James G. Christensen, Keith A. Ching
Published 2012-01-01

A novel SND1-BRAF fusion confers resistance to c-Met inhibitor PF-04217903 in GTL16 cells through [corrected] MAPK activation.

by Nathan V Lee, Maruja E Lira, Adam Pavlicek, Jingjing Ye, Dana Buckman, Shubha Bagrodia, Sreesha P Srinivasa, Yongjun Zhao, Samuel Aparicio, Paul A Rejto, James G Christensen, Keith A Ching
Published 2012-01-01

High-Resolution Single-Cell DNA Methylation Measurements Reveal Epigenetically Distinct Hematopoietic Stem Cell Subpopulations

by Tony Hui, Qi Cao, Joanna Wegrzyn-Woltosz, Kieran O'Neill, Colin A. Hammond, David J.H.F. Knapp, Emma Laks, Michelle Moksa, Samuel Aparicio, Connie J. Eaves, Aly Karsan, Martin Hirst
Published 2018-08-01

Atrophin controls developmental signaling pathways via interactions with Trithorax-like

by Kelvin Yeung, Ann Boija, Edvin Karlsson, Per-Henrik Holmqvist, Yonit Tsatskis, Ilaria Nisoli, Damian Yap, Alireza Lorzadeh, Michelle Moksa, Martin Hirst, Samuel Aparicio, Manolis Fanto, Per Stenberg, Mattias Mannervik, Helen McNeill
Published 2017-03-01

Mll5 is required for normal spermatogenesis.

by Damian B Yap, David C Walker, Leah M Prentice, Steven McKinney, Gulisa Turashvili, Katrin Mooslehner-Allen, Teresa Ruiz de Algara, John Fee, Xavier d'Anglemont de Tassigny, William H Colledge, Samuel Aparicio
Published 2011-01-01

Combined Use of Gene Expression Modeling and siRNA Screening Identifies Genes and Pathways Which Enhance the Activity of Cisplatin When Added at No Effect Levels to Non-Small Cell...

by Ada W Y Leung, Stacy S Hung, Ian Backstrom, Daniel Ricaurte, Brian Kwok, Steven Poon, Steven McKinney, Romulo Segovia, Jenna Rawji, Mohammed A Qadir, Samuel Aparicio, Peter C Stirling, Christian Steidl, Marcel B Bally
Published 2016-01-01

clonealign: statistical integration of independent single-cell RNA and DNA sequencing data from human cancers

by Kieran R. Campbell, Adi Steif, Emma Laks, Hans Zahn, Daniel Lai, Andrew McPherson, Hossein Farahani, Farhia Kabeer, Ciara O’Flanagan, Justina Biele, Jazmine Brimhall, Beixi Wang, Pascale Walters, IMAXT Consortium, Alexandre Bouchard-Côté, Samuel Aparicio, Sohrab P. Shah
Published 2019-03-01

Epiclomal: Probabilistic clustering of sparse single-cell DNA methylation data.

by Camila P E de Souza, Mirela Andronescu, Tehmina Masud, Farhia Kabeer, Justina Biele, Emma Laks, Daniel Lai, Patricia Ye, Jazmine Brimhall, Beixi Wang, Edmund Su, Tony Hui, Qi Cao, Marcus Wong, Michelle Moksa, Richard A Moore, Martin Hirst, Samuel Aparicio, Sohrab P Shah
Published 2020-09-01

Improving breast cancer survival analysis through competition-based multidimensional modeling.

by Erhan Bilal, Janusz Dutkowski, Justin Guinney, In Sock Jang, Benjamin A Logsdon, Gaurav Pandey, Benjamin A Sauerwine, Yishai Shimoni, Hans Kristian Moen Vollan, Brigham H Mecham, Oscar M Rueda, Jorg Tost, Christina Curtis, Mariano J Alvarez, Vessela N Kristensen, Samuel Aparicio, Anne-Lise Børresen-Dale, Carlos Caldas, Andrea Califano, Stephen H Friend, Trey Ideker, Eric E Schadt, Gustavo A Stolovitzky, Adam A Margolin
Published 2013-01-01

Dissociation of solid tumor tissues with cold active protease for single-cell RNA-seq minimizes conserved collagenase-associated stress responses

by Ciara H. O’Flanagan, Kieran R. Campbell, Allen W. Zhang, Farhia Kabeer, Jamie L. P. Lim, Justina Biele, Peter Eirew, Daniel Lai, Andrew McPherson, Esther Kong, Cherie Bates, Kelly Borkowski, Matt Wiens, Brittany Hewitson, James Hopkins, Jenifer Pham, Nicholas Ceglia, Richard Moore, Andrew J. Mungall, Jessica N. McAlpine, The CRUK IMAXT Grand Challenge Team, Sohrab P. Shah, Samuel Aparicio
Published 2019-10-01

A Scalable Strand-Specific Protocol Enabling Full-Length Total RNA Sequencing From Single Cells

by Simon Haile, Richard D. Corbett, Veronique G. LeBlanc, Lisa Wei, Stephen Pleasance, Steve Bilobram, Ka Ming Nip, Kirstin Brown, Eva Trinh, Jillian Smith, Diane L. Trinh, Miruna Bala, Eric Chuah, Robin J. N. Coope, Richard A. Moore, Andrew J. Mungall, Karen L. Mungall, Yongjun Zhao, Martin Hirst, Samuel Aparicio, Inanc Birol, Inanc Birol, Steven J. M. Jones, Steven J. M. Jones, Marco A. Marra, Marco A. Marra
Published 2021-06-01

CLK-dependent exon recognition and conjoined gene formation revealed with a novel small molecule inhibitor

by Tyler Funnell, Shinya Tasaki, Arusha Oloumi, Shinsuke Araki, Esther Kong, Damian Yap, Yusuke Nakayama, Christopher S. Hughes, S.-W. Grace Cheng, Hirokazu Tozaki, Misa Iwatani, Satoshi Sasaki, Tomohiro Ohashi, Tohru Miyazaki, Nao Morishita, Daisuke Morishita, Mari Ogasawara-Shimizu, Momoko Ohori, Shoichi Nakao, Masatoshi Karashima, Masaya Sano, Aiko Murai, Toshiyuki Nomura, Noriko Uchiyama, Tomohiro Kawamoto, Ryujiro Hara, Osamu Nakanishi, Karey Shumansky, Jamie Rosner, Adrian Wan, Steven McKinney, Gregg B. Morin, Atsushi Nakanishi, Sohrab Shah, Hiroyoshi Toyoshiba, Samuel Aparicio
Published 2017-02-01

The somatic mutation profiles of 2,433 breast cancers refine their genomic and transcriptomic landscapes

by Bernard Pereira, Suet-Feung Chin, Oscar M. Rueda, Hans-Kristian Moen Vollan, Elena Provenzano, Helen A. Bardwell, Michelle Pugh, Linda Jones, Roslin Russell, Stephen-John Sammut, Dana W. Y. Tsui, Bin Liu, Sarah-Jane Dawson, Jean Abraham, Helen Northen, John F. Peden, Abhik Mukherjee, Gulisa Turashvili, Andrew R. Green, Steve McKinney, Arusha Oloumi, Sohrab Shah, Nitzan Rosenfeld, Leigh Murphy, David R. Bentley, Ian O. Ellis, Arnie Purushotham, Sarah E. Pinder, Anne-Lise Børresen-Dale, Helena M. Earl, Paul D. Pharoah, Mark T. Ross, Samuel Aparicio, Carlos Caldas
Published 2016-05-01

Erratum: The somatic mutation profiles of 2,433 breast cancers refine their genomic and transcriptomic landscapes

by Bernard Pereira, Suet-Feung Chin, Oscar M. Rueda, Hans-Kristian Moen Vollan, Elena Provenzano, Helen A. Bardwell, Michelle Pugh, Linda Jones, Roslin Russell, Stephen-John Sammut, Dana W. Y. Tsui, Bin Liu, Sarah-Jane Dawson, Jean Abraham, Helen Northen, John F. Peden, Abhik Mukherjee, Gulisa Turashvili, Andrew R. Green, Steve McKinney, Arusha Oloumi, Sohrab Shah, Nitzan Rosenfeld, Leigh Murphy, David R. Bentley, Ian O. Ellis, Arnie Purushotham, Sarah E. Pinder, Anne-Lise Børresen-Dale, Helena M. Earl, Paul D. Pharoah, Mark T. Ross, Samuel Aparicio, Carlos Caldas
Published 2016-06-01

CX-5461 is a DNA G-quadruplex stabilizer with selective lethality in BRCA1/2 deficient tumours

by Hong Xu, Marco Di Antonio, Steven McKinney, Veena Mathew, Brandon Ho, Nigel J. O’Neil, Nancy Dos Santos, Jennifer Silvester, Vivien Wei, Jessica Garcia, Farhia Kabeer, Daniel Lai, Priscilla Soriano, Judit Banáth, Derek S. Chiu, Damian Yap, Daniel D. Le, Frank B. Ye, Anni Zhang, Kelsie Thu, John Soong, Shu-chuan Lin, Angela Hsin Chin Tsai, Tomo Osako, Teresa Algara, Darren N. Saunders, Jason Wong, Jian Xian, Marcel B. Bally, James D. Brenton, Grant W. Brown, Sohrab P. Shah, David Cescon, Tak W. Mak, Carlos Caldas, Peter C. Stirling, Phil Hieter, Shankar Balasubramanian, Samuel Aparicio
Published 2017-02-01

Eleven grand challenges in single-cell data science

by David Lähnemann, Johannes Köster, Ewa Szczurek, Davis J. McCarthy, Stephanie C. Hicks, Mark D. Robinson, Catalina A. Vallejos, Kieran R. Campbell, Niko Beerenwinkel, Ahmed Mahfouz, Luca Pinello, Pavel Skums, Alexandros Stamatakis, Camille Stephan-Otto Attolini, Samuel Aparicio, Jasmijn Baaijens, Marleen Balvert, Buys de Barbanson, Antonio Cappuccio, Giacomo Corleone, Bas E. Dutilh, Maria Florescu, Victor Guryev, Rens Holmer, Katharina Jahn, Thamar Jessurun Lobo, Emma M. Keizer, Indu Khatri, Szymon M. Kielbasa, Jan O. Korbel, Alexey M. Kozlov, Tzu-Hao Kuo, Boudewijn P.F. Lelieveldt, Ion I. Mandoiu, John C. Marioni, Tobias Marschall, Felix Mölder, Amir Niknejad, Lukasz Raczkowski, Marcel Reinders, Jeroen de Ridder, Antoine-Emmanuel Saliba, Antonios Somarakis, Oliver Stegle, Fabian J. Theis, Huan Yang, Alex Zelikovsky, Alice C. McHardy, Benjamin J. Raphael, Sohrab P. Shah, Alexander Schönhuth
Published 2020-02-01