Search Results - Steven J.M. Jones

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  1. 1

    A p53 transcriptional signature in primary and metastatic cancers derived using machine learning by Faeze Keshavarz-Rahaghi, Faeze Keshavarz-Rahaghi, Erin Pleasance, Tyler Kolisnik, Tyler Kolisnik, Steven J. M. Jones, Steven J. M. Jones, Steven J. M. Jones

    Published in Frontiers in Genetics (2022-08-01)
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  2. 2

    Transcriptional patterns of cancer-related genes in primary and metastatic tumours revealed by machine learning by Faeze Keshavarz-Rahaghi, Erin Pleasance, Steven J. M. Jones

    Published in BMC Biology (2025-08-01)
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  3. 3

    Management and visualization of whole genome shotgun assemblies using SAM by René L. Warren, Yaron S. Butterfield, Ryan D. Morin, Asim S. Siddiqui, Marco A. Marra, Steven J.M. Jones

    Published in BioTechniques (2005-05-01)
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  4. 4

    Parent-of-origin detection and chromosome-scale haplotyping using long-read DNA methylation sequencing and Strand-seq by Vahid Akbari, Vincent C.T. Hanlon, Kieran O’Neill, Louis Lefebvre, Kasmintan A. Schrader, Peter M. Lansdorp, Steven J.M. Jones

    Published in Cell Genomics (2023-01-01)
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  5. 5

    Adaptable and comprehensive approaches for long-read nanopore sequencing of polyadenylated and non-polyadenylated RNAs by Simon Haile, Richard D. Corbett, Kieran O’Neill, Jing Xu, Duane E. Smailus, Pawan K. Pandoh, Anthony Bayega, Miruna Bala, Eric Chuah, Robin J. N. Coope, Richard A. Moore, Karen L. Mungall, Yongjun Zhao, Yussanne Ma, Marco A. Marra, Marco A. Marra, Steven J. M. Jones, Steven J. M. Jones, Andrew J. Mungall

    Published in Frontiers in Genetics (2024-12-01)
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  6. 6

    Text-mining clinically relevant cancer biomarkers for curation into the CIViC database by Jake Lever, Martin R. Jones, Arpad M. Danos, Kilannin Krysiak, Melika Bonakdar, Jasleen K. Grewal, Luka Culibrk, Obi L. Griffith, Malachi Griffith, Steven J. M. Jones

    Published in Genome Medicine (2019-12-01)
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  7. 7

    Profiling the HeLa S3 transcriptome using randomly primed cDNA and massively parallel short-read sequencing by Ryan D. Morin, Matthew Bainbridge, Anthony Fejes, Martin Hirst, Martin Krzywinski, Trevor J. Pugh, Helen McDonald, Richard Varhol, Steven J.M. Jones, Marco A. Marra

    Published in BioTechniques (2008-07-01)
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  8. 8

    Exploration of Germline Correlates and Risk of Immune-Related Adverse Events in Advanced Cancer Patients Treated with Immune Checkpoint Inhibitors by Emma Titmuss, Irene S. Yu, Erin D. Pleasance, Laura M. Williamson, Karen Mungall, Andrew J. Mungall, Daniel J. Renouf, Richard Moore, Steven J. M. Jones, Marco A. Marra, Janessa J. Laskin, Kerry J. Savage

    Published in Current Oncology (2024-03-01)
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  9. 9

    Genomic Analysis of a Serotype 5 Streptococcus pneumoniae Outbreak in British Columbia, Canada, 2005–2009 by Ruth R. Miller, Morgan G. I. Langille, Vincent Montoya, Anamaria Crisan, Aleksandra Stefanovic, Irene Martin, Linda Hoang, David M. Patrick, Marc Romney, Gregory Tyrrell, Steven J. M. Jones, Fiona S. L. Brinkman, Patrick Tang

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  10. 10

    Whole-genome analysis of an aggressive metastatic pancreatic solid pseudopapillary neoplasm by Phoebe T. M. Cheng, James T. Topham, Ayman Aldeheshi, Gregory A. Taylor, Erin Pleasance, Melissa K. McConechy, Jessica M. T. Nelson, David F. Schaeffer, Steven J. M. Jones, Marco A. Marra, Janessa Laskin, Daniel J. Renouf

    Published in npj Precision Oncology (2025-03-01)
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  11. 11

    VOLTA: an enVironment-aware cOntrastive ceLl represenTation leArning for histopathology by Ramin Nakhli, Katherine Rich, Allen Zhang, Amirali Darbandsari, Elahe Shenasa, Amir Hadjifaradji, Sidney Thiessen, Katy Milne, Steven J. M. Jones, Jessica N. McAlpine, Brad H. Nelson, C. Blake Gilks, Hossein Farahani, Ali Bashashati

    Published in Nature Communications (2024-05-01)
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  12. 12

    Hippo Signaling Influences HNF4A and FOXA2 Enhancer Switching during Hepatocyte Differentiation by Olivia Alder, Rebecca Cullum, Sam Lee, Arohumam C. Kan, Wei Wei, Yuyin Yi, Victoria C. Garside, Misha Bilenky, Malachi Griffith, A. Sorana Morrissy, Gordon A. Robertson, Nina Thiessen, Yongjun Zhao, Qian Chen, Duojia Pan, Steven J.M. Jones, Marco A. Marra, Pamela A. Hoodless

    Published in Cell Reports (2014-10-01)
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  13. 13

    A generalizable machine learning framework for classifying DNA repair defects using ctDNA exomes by Elie J. Ritch, Cameron Herberts, Evan W. Warner, Sarah W. S. Ng, Edmond M. Kwan, Jack V. W. Bacon, Cecily Q. Bernales, Elena Schönlau, Nicolette M. Fonseca, Veda N. Giri, Corinne Maurice-Dror, Gillian Vandekerkhove, Steven J. M. Jones, Kim N. Chi, Alexander W. Wyatt

    Published in npj Precision Oncology (2023-03-01)
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  14. 14

    Chemokine expression predicts T cell-inflammation and improved survival with checkpoint inhibition across solid cancers by Joan Miguel Romero, Emma Titmuss, Yifan Wang, James Vafiadis, Alain Pacis, Gun Ho Jang, Amy Zhang, Bryn Golesworthy, Tatiana Lenko, Laura M. Williamson, Barbara Grünwald, Grainne M. O’Kane, Steven J. M. Jones, Marco. A. Marra, Julie M. Wilson, Steven Gallinger, Janessa Laskin, George Zogopoulos

    Published in npj Precision Oncology (2023-08-01)
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  15. 15

    Clinical and cost outcomes following genomics‐informed treatment for advanced cancers by Deirdre Weymann, Samantha Pollard, Brandon Chan, Emma Titmuss, Alexandra Bohm, Janessa Laskin, Steven J. M. Jones, Erin Pleasance, Jessica Nelson, Alexandra Fok, Howard Lim, Aly Karsan, Daniel J. Renouf, Kasmintan A. Schrader, Sophie Sun, Stephen Yip, David F. Schaeffer, Marco A. Marra, Dean A. Regier

    Published in Cancer Medicine (2021-08-01)
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  16. 16

    Neutrophil extracellular trap gene expression signatures identify prognostic and targetable signaling axes for inhibiting pancreatic tumour metastasis by Paul C. McDonald, James T. Topham, Shannon Awrey, Hossein Tavakoli, Rebekah Carroll, Wells S. Brown, Zachary J. Gerbec, Steve E. Kalloger, Joanna M. Karasinska, Patricia Tang, Rachel Goodwin, Steven J. M. Jones, Janessa Laskin, Marco A. Marra, Gregg B. Morin, Daniel J. Renouf, David F. Schaeffer, Shoukat Dedhar

    Published in Communications Biology (2025-07-01)
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  17. 17

    AI-based histopathology image analysis reveals a distinct subset of endometrial cancers by Amirali Darbandsari, Hossein Farahani, Maryam Asadi, Matthew Wiens, Dawn Cochrane, Ali Khajegili Mirabadi, Amy Jamieson, David Farnell, Pouya Ahmadvand, Maxwell Douglas, Samuel Leung, Purang Abolmaesumi, Steven J. M. Jones, Aline Talhouk, Stefan Kommoss, C. Blake Gilks, David G. Huntsman, Naveena Singh, Jessica N. McAlpine, Ali Bashashati

    Published in Nature Communications (2024-06-01)
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  18. 18

    Comprehensive whole genome sequence analyses yields novel genetic and structural insights for Intellectual Disability by Farah R. Zahir, Jill C. Mwenifumbo, Hye-Jung E. Chun, Emilia L. Lim, Clara D. M. Van Karnebeek, Madeline Couse, Karen L. Mungall, Leora Lee, Nancy Makela, Linlea Armstrong, Cornelius F. Boerkoel, Sylvie L. Langlois, Barbara M. McGillivray, Steven J. M. Jones, Jan M. Friedman, Marco A. Marra

    Published in BMC Genomics (2017-05-01)
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  19. 19

    Genome-Enhanced Detection and Identification (GEDI) of plant pathogens by Nicolas Feau, Stéphanie Beauseigle, Marie-Josée Bergeron, Guillaume J. Bilodeau, Inanc Birol, Sandra Cervantes-Arango, Braham Dhillon, Angela L. Dale, Padmini Herath, Steven J.M. Jones, Josyanne Lamarche, Dario I. Ojeda, Monique L. Sakalidis, Greg Taylor, Clement K.M. Tsui, Adnan Uzunovic, Hesther Yueh, Philippe Tanguay, Richard C. Hamelin

    Published in PeerJ (2018-02-01)
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  20. 20

    Homologous recombination deficiency signatures in gastrointestinal and thoracic cancers correlate with platinum therapy duration by Erica S. Tsang, Veronika Csizmok, Laura M. Williamson, Erin Pleasance, James T. Topham, Joanna M. Karasinska, Emma Titmuss, Intan Schrader, Stephen Yip, Basile Tessier-Cloutier, Karen Mungall, Tony Ng, Sophie Sun, Howard J. Lim, Jonathan M. Loree, Janessa Laskin, Marco A. Marra, Steven J. M. Jones, David F. Schaeffer, Daniel J. Renouf

    Published in npj Precision Oncology (2023-03-01)
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