A computational approach to distinguish somatic vs. germline origin of genomic alterations from deep sequencing of cancer specimens without a matched normal
Sun, James X, He, Yuting, Sanford, Eric, Montesion, Meagan, Frampton, Garrett M, Vignot, Stéphane, Soria, Jean-Charles, Ross, Jeffrey S, Miller, Vincent A, Stephens, Phil J, Lipson, Doron, Yelensky, Roman
Published in PLoS computational biology (07.02.2018)
Published in PLoS computational biology (07.02.2018)
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BRCA Reversion Mutations in Circulating Tumor DNA Predict Primary and Acquired Resistance to the PARP Inhibitor Rucaparib in High-Grade Ovarian Carcinoma
Lin, Kevin K, Harrell, Maria I, Oza, Amit M, Oaknin, Ana, Ray-Coquard, Isabelle, Tinker, Anna V, Helman, Elena, Radke, Marc R, Say, Carmen, Vo, Lan-Thanh, Mann, Elaina, Isaacson, Jeffrey D, Maloney, Lara, O'Malley, David M, Chambers, Setsuko K, Kaufmann, Scott H, Scott, Clare L, Konecny, Gottfried E, Coleman, Robert L, Sun, James X, Giordano, Heidi, Brenton, James D, Harding, Thomas C, McNeish, Iain A, Swisher, Elizabeth M
Published in Cancer discovery (01.02.2019)
Published in Cancer discovery (01.02.2019)
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A direct characterization of human mutation based on microsatellites
Sun, James X, Helgason, Agnar, Masson, Gisli, Ebenesersdóttir, Sigríður Sunna, Li, Heng, Mallick, Swapan, Gnerre, Sante, Patterson, Nick, Kong, Augustine, Reich, David, Stefansson, Kari
Published in Nature genetics (01.10.2012)
Published in Nature genetics (01.10.2012)
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A Novel Next-Generation Sequencing Approach to Detecting Microsatellite Instability and Pan-Tumor Characterization of 1000 Microsatellite Instability–High Cases in 67,000 Patient Samples
Trabucco, Sally E., Gowen, Kyle, Maund, Sophia L., Sanford, Eric, Fabrizio, David A., Hall, Michael J., Yakirevich, Evgeny, Gregg, Jeffrey P., Stephens, Phil J., Frampton, Garrett M., Hegde, Priti S., Miller, Vincent A., Ross, Jeffrey S., Hartmaier, Ryan J., Huang, Shih-Min A., Sun, James X.
Published in The Journal of molecular diagnostics : JMD (01.11.2019)
Published in The Journal of molecular diagnostics : JMD (01.11.2019)
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Targeted Next Generation Sequencing Identifies Markers of Response to PD-1 Blockade
Johnson, Douglas B, Frampton, Garrett M, Rioth, Matthew J, Yusko, Erik, Xu, Yaomin, Guo, Xingyi, Ennis, Riley C, Fabrizio, David, Chalmers, Zachary R, Greenbowe, Joel, Ali, Siraj M, Balasubramanian, Sohail, Sun, James X, He, Yuting, Frederick, Dennie T, Puzanov, Igor, Balko, Justin M, Cates, Justin M, Ross, Jeffrey S, Sanders, Catherine, Robins, Harlan, Shyr, Yu, Miller, Vincent A, Stephens, Philip J, Sullivan, Ryan J, Sosman, Jeffrey A, Lovly, Christine M
Published in Cancer immunology research (01.11.2016)
Published in Cancer immunology research (01.11.2016)
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Genomic Profiling of a Large Set of Diverse Pediatric Cancers Identifies Known and Novel Mutations across Tumor Spectra
Chmielecki, Juliann, Bailey, Mark, He, Jie, Elvin, Julia, Vergilio, Jo-Anne, Ramkissoon, Shakti, Suh, James, Frampton, Garrett M, Sun, James X, Morley, Samantha, Spritz, Daniel, Ali, Siraj, Gay, Laurie, Erlich, Rachel L, Ross, Jeffrey S, Buxhaku, Joana, Davies, Hilary, Faso, Vinny, Germain, Alexis, Glanville, Blair, Miller, Vincent A, Stephens, Philip J, Janeway, Katherine A, Maris, John M, Meshinchi, Soheil, Pugh, Trevor J, Shern, Jack F, Lipson, Doron
Published in Cancer research (Chicago, Ill.) (15.01.2017)
Published in Cancer research (Chicago, Ill.) (15.01.2017)
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Journal Article
Clinical Actionability of Comprehensive Genomic Profiling for Management of Rare or Refractory Cancers
Hirshfield, Kim M., Tolkunov, Denis, Zhong, Hua, Ali, Siraj M., Stein, Mark N., Murphy, Susan, Vig, Hetal, Vazquez, Alexei, Glod, John, Moss, Rebecca A., Belyi, Vladimir, Chan, Chang S., Chen, Suzie, Goodell, Lauri, Foran, David, Yelensky, Roman, Palma, Norma A., Sun, James X., Miller, Vincent A., Stephens, Philip J., Ross, Jeffrey S., Kaufman, Howard, Poplin, Elizabeth, Mehnert, Janice, Tan, Antoinette R., Bertino, Joseph R., Aisner, Joseph, DiPaola, Robert S., Rodriguez‐Rodriguez, Lorna, Ganesan, Shridar
Published in The oncologist (Dayton, Ohio) (01.11.2016)
Published in The oncologist (Dayton, Ohio) (01.11.2016)
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Broad Detection of Alterations Predicted to Confer Lack of Benefit From EGFR Antibodies or Sensitivity to Targeted Therapy in Advanced Colorectal Cancer
Rankin, Andrew, Klempner, Samuel J., Erlich, Rachel, Sun, James X., Grothey, Axel, Fakih, Marwan, George, Thomas J., Lee, Jeeyun, Ross, Jeffrey S., Stephens, Philip J., Miller, Vincent A., Ali, Siraj M., Schrock, Alexa B.
Published in The oncologist (Dayton, Ohio) (01.11.2016)
Published in The oncologist (Dayton, Ohio) (01.11.2016)
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Journal Article
Loss of heterozygosity at the CYP2D6 locus in breast cancer: implications for germline pharmacogenetic studies
Goetz, Matthew P, Sun, James X, Suman, Vera J, Silva, Grace O, Perou, Charles M, Nakamura, Yusuke, Cox, Nancy J, Stephens, Philip J, Miller, Vincent A, Ross, Jeffrey S, Chen, David, Safgren, Stephanie L, Kuffel, Mary J, Ames, Matthew M, Kalari, Krishna R, Gomez, Henry L, Gonzalez-Angulo, Ana M, Burgues, Octavio, Brauch, Hiltrud B, Ingle, James N, Ratain, Mark J, Yelensky, Roman
Published in JNCI : Journal of the National Cancer Institute (01.02.2015)
Published in JNCI : Journal of the National Cancer Institute (01.02.2015)
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Comprehensive Genomic Profiling of Clinically Advanced Medullary Thyroid Carcinoma
Heilmann, Andreas M, Subbiah, Vivek, Wang, Kai, Sun, James X, Elvin, Julia A, Chmielecki, Juliann, Sherman, Steven I, Murthy, Ravi, Busaidy, Naifa L, Subbiah, Ishwaria, Yelensky, Roman, Nangia, Chaitali, Vergilio, Jo-Anne, Khan, Saad A, Erlich, Rachel L, Lipson, Doron, Ross, Jeffrey S, Miller, Vincent A, Shah, Manisha H, Ali, Siraj M, Stephens, Philip J
Published in Oncology (01.01.2016)
Published in Oncology (01.01.2016)
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The cardiac output from blood pressure algorithms trial
Sun, James X, Reisner, Andrew T, Saeed, Mohammed, Heldt, Thomas, Mark, Roger G
Published in Critical care medicine (01.01.2009)
Published in Critical care medicine (01.01.2009)
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Journal Article
Microsatellites Are Molecular Clocks That Support Accurate Inferences about History
Sun, James X., Mullikin, James C., Patterson, Nick, Reich, David E.
Published in Molecular biology and evolution (01.05.2009)
Published in Molecular biology and evolution (01.05.2009)
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Journal Article
First-in-human trial of multikinase VEGF inhibitor regorafenib and anti-EGFR antibody cetuximab in advanced cancer patients
Subbiah, Vivek, Khawaja, Muhammad Rizwan, Hong, David S, Amini, Behrang, Yungfang, Jiang, Liu, Hui, Johnson, Adrienne, Schrock, Alexa B, Ali, Siraj M, Sun, James X, Fabrizio, David, Piha-Paul, Sarina, Fu, Siqing, Tsimberidou, Apostolia M, Naing, Aung, Janku, Filip, Karp, Daniel D, Overman, Michael, Eng, Cathy, Kopetz, Scott, Meric-Bernstam, Funda, Falchook, Gerald S
Published in JCI insight (20.04.2017)
Published in JCI insight (20.04.2017)
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Abstract 1607: An ERBB2 follow-on companion diagnostic for clinical care of patients with breast cancer
Yip, Wai-ki, Skoletsky, Joel, Ma, Pei, Luo, Jun, Milbury, Coren, Burns, Christine, Truesdell, John, Elvin, Julia, Otto, Geoff, Lipson, Doron, Ross, Jeffrey, Miller, Vincent, Stephens, Philip, Doherty, Michael, Vietz, Christine, Sun, James X., Li, Yali
Published in Cancer research (Chicago, Ill.) (01.07.2018)
Published in Cancer research (Chicago, Ill.) (01.07.2018)
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Abstract 417: Comparative analysis of clinically validated NGS-based assays reveals high concordance across short variants
Dewal, Ninad P., Skoletsky, Joel, Yip, Wai-Ki, Patriquin, Caitlin, He, Yuting, Ross, Jeffrey S., Miller, Vincent A., Stephens, Philip J., Burns, Christine, Vietz, Christine, Li, Yali, Pritchard, Colin, Sun, James X.
Published in Cancer research (Chicago, Ill.) (01.07.2018)
Published in Cancer research (Chicago, Ill.) (01.07.2018)
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Abstract 4544: A validated diagnostic assay for identifying ovarian cancer patients with deleterious BRCA mutations and high genomic loss of heterozygosity (LOH)
Sun, James X., Lin, Kevin, Li, Yali, Gowen, Kyle, He, Yuting, Milbury, Coren, Burns, Christine, Luo, Jun, Roels, Steve, Mehdi, Murtaza, Truesdell, John, Ma, Pei, Ramamurthy, Lakshman, Vietz, Christine, Beltman, Jeri, Harding, Thomas, Lipson, Doron, Ross, Jeffrey, Miller, Vincent, Stephens, Philip, Doherty, Michael, Elvin, Julia
Published in Cancer research (Chicago, Ill.) (01.07.2018)
Published in Cancer research (Chicago, Ill.) (01.07.2018)
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Abstract 1893: A computational method for somatic versus germline variant status determination from targeted next-generation sequencing of clinical cancer specimens without a matched normal control
Sun, James X., Frampton, Garrett, Wang, Kai, Ross, Jeffrey S., Miller, Vincent A., Stephens, Philip J., Lipson, Doron, Yelensky, Roman
Published in Cancer research (Chicago, Ill.) (01.10.2014)
Published in Cancer research (Chicago, Ill.) (01.10.2014)
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Abstract 4757: A clinically validated comprehensive companion diagnostic platform for care of patients with advanced cancer
Sun, James X., Li, Yali, Milbury, Coren, Skoletsky, Joel, Burns, Christine, Yip, Wai-ki, Luo, Jun, Dewal, Ninad, Johnson, Adrienne, Gowen, Kyle, Tong, Jing, He, Yuting, He, Jie, Ma, Pei, White, Jared, Roels, Steve, Truesdell, John, Peters, Eric, Gilbert, Houston, Wu, Charlie, Schleifman, Erica, Noe, Johannes, Barrett, Carl, Thress, Kenneth, Jenkins, Suzanne, Elvin, Julia, Otto, Geoff, Lipson, Doron, Ross, Jeffrey, Miller, Vincent, Stephens, Philip, Doherty, Michael, Vietz, Christine
Published in Cancer research (Chicago, Ill.) (01.07.2018)
Published in Cancer research (Chicago, Ill.) (01.07.2018)
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Abstract 3394: CGP identifies largely non-overlapping high tumor mutational burden and HRD genomic alterations in 721 clinically advanced prostate acinar adenocarcinoma cases
Dewal, Ninad, He, Yuting, Lee, Richard J., Schrock, Alexa B., Chung, Jon, Hoimes, Christopher, Chalmers, Zachary R., Frampton, Garrett M., Sun, James X., Lara, Primo N., Agrawal, Neeraj, Matthew, Paul, Stephens, Philip J., Miller, Vincent A., Ross, Jeffrey S., Ali, Siraj M.
Published in Cancer research (Chicago, Ill.) (01.07.2017)
Published in Cancer research (Chicago, Ill.) (01.07.2017)
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Abstract 611: Exploratory analyses suggest ovarian tumors with somatic or germline loss of function mutations in BRCA1 or BRCA2 are biologically similar and sensitive to PARP inhibition
Dougherty, Brian, Lai, Zhongwu, Ledermann, Jonathan A., Robertson, Jane D., Ho, Tony W., Wu, Wenting, Hodgson, Darren R., Orr, Maria C M, O'Connor, Mark J., Hawryluk, Matthew J., Brennan, Timothy A., Yelensky, Roman, Sun, James X., Barrett, J Carl
Published in Cancer research (Chicago, Ill.) (01.08.2015)
Published in Cancer research (Chicago, Ill.) (01.08.2015)
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