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NTRK fusion detection across multiple assays and 33,997 cases: diagnostic implications and pitfalls
Author / Creator:Solomon, James P. ; Linkov, Irina ; Rosado, Andrea ; Mullaney, Kerry ; Rosen, Ezra Y. ; Frosina, Denise ; Jungbluth, Achim A. ; Zehir, Ahmet ; Benayed, Ryma ; Drilon, Alexander ; Hyman, David M. ; Ladanyi, Marc ; Sireci, Anthony N. ; Hechtman, Jaclyn F.
Publisher:New York: Nature Publishing Group US
Journal title:Modern pathology, 2020-01, Vol.33 (1), p.38-46
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DNAJB1-PRKACA fusions occur in oncocytic pancreatic and biliary neoplasms and are not specific for fibrolamellar hepatocellular carcinoma
Author / Creator:Vyas, Monika ; Hechtman, Jaclyn F. ; Zhang, Yanming ; Benayed, Ryma ; Yavas, Aslihan ; Askan, Gokce ; Shia, Jinru ; Klimstra, David S. ; Basturk, Olca
Publisher:New York: Nature Publishing Group US
Journal title:Modern pathology, 2020-04, Vol.33 (4), p.648-656
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Structure–function analysis of oncogenic EGFR Kinase Domain Duplication reveals insights into activation and a potential approach for therapeutic targeting
Author / Creator:Du, Zhenfang ; Brown, Benjamin P. ; Kim, Soyeon ; Ferguson, Donna ; Pavlick, Dean C. ; Jayakumaran, Gowtham ; Benayed, Ryma ; Gallant, Jean-Nicolas ; Zhang, Yun-Kai ; Yan, Yingjun ; Red-Brewer, Monica ; Ali, Siraj M. ; Schrock, Alexa B. ; Zehir, Ahmet ; Ladanyi, Marc ; Smith, Adam W. ; Meiler, Jens ; Lovly, Christine M.
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2021-03, Vol.12 (1), p.1382-15, Article 1382
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Retained mismatch repair protein expression occurs in approximately 6% of microsatellite instability-high cancers and is associated with missense mutations in mismatch repair genes
Author / Creator:Hechtman, Jaclyn F. ; Rana, Satshil ; Middha, Sumit ; Stadler, Zsofia K. ; Latham, Alicia ; Benayed, Ryma ; Soslow, Robert ; Ladanyi, Marc ; Yaeger, Rona ; Zehir, Ahmet ; Shia, Jinru
Publisher:New York: Nature Publishing Group US
Journal title:Modern pathology, 2020-05, Vol.33 (5), p.871-879
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Interplay between chromosomal alterations and gene mutations shapes the evolutionary trajectory of clonal hematopoiesis
Author / Creator:Gao, Teng ; Ptashkin, Ryan ; Bolton, Kelly L. ; Sirenko, Maria ; Fong, Christopher ; Spitzer, Barbara ; Menghrajani, Kamal ; Ossa, Juan E. Arango ; Zhou, Yangyu ; Bernard, Elsa ; Levine, Max ; Martinez, Juan S. Medina ; Zhang, Yanming ; Franch-Expósito, Sebastià ; Patel, Minal ; Braunstein, Lior Z. ; Kelly, Daniel ; Yabe, Mariko ; Benayed, Ryma ; Caltabellotta, Nicole M. ; Philip, John ; Paraiso, Ederlinda ; Mantha, Simon ; Solit, David B. ; Diaz, Luis A. ; Berger, Michael F. ; Klimek, Virginia ; Levine, Ross L. ; Zehir, Ahmet ; Devlin, Sean M. ; Papaemmanuil, Elli
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2021-01, Vol.12 (1), p.338-11, Article 338
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ZC3H7B-BCOR high-grade endometrial stromal sarcomas: a report of 17 cases of a newly defined entity
Author / Creator:Lewis, Natasha ; Soslow, Robert A ; Delair, Deborah F ; Park, Kay J ; Murali, Rajmohan ; Hollmann, Travis J ; Davidson, Ben ; Micci, Francesca ; Panagopoulos, Ioannis ; Hoang, Lien N ; Arias-Stella, Javier A ; Oliva, Esther ; Young, Robert H ; Hensley, Martee L ; Leitao, Mario M ; Hameed, Meera ; Benayed, Ryma ; Ladanyi, Marc ; Frosina, Denise ; Jungbluth, Achim A ; Antonescu, Cristina R ; Chiang, Sarah
Publisher:New York: Nature Publishing Group US
Journal title:Modern pathology, 2018-04, Vol.31 (4), p.674-684
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High-grade transformation of low-grade endometrial stromal sarcomas lacking YWHAE and BCOR genetic abnormalities
Author / Creator:Zou, Youran ; Turashvili, Gulisa ; Soslow, Robert A. ; Park, Kay J. ; Croce, Sabrina ; McCluggage, W. Glenn ; Stewart, Colin J.R. ; Oda, Yoshinao ; Oliva, Esther ; Young, Robert H. ; Da Cruz Paula, Arnaud ; Dessources, Kimberly ; Ashley, Charles W. ; Hensley, Martee L. ; Yip, Stephen ; Weigelt, Britta ; Benayed, Ryma ; Antonescu, Cristina R. ; Lee, Cheng-Han ; Chiang, Sarah
Publisher:New York: Elsevier Inc
Journal title:Modern pathology, 2020-09, Vol.33 (9), p.1861-1870
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Targeted RNA expression profiling identifies high-grade endometrial stromal sarcoma as a clinically relevant molecular subtype of uterine sarcoma
Author / Creator:Momeni-Boroujeni, Amir ; Mohammad, Nissreen ; Wolber, Robert ; Yip, Stephen ; Köbel, Martin ; Dickson, Brendan C. ; Hensley, Martee L. ; Leitao, Mario M. ; Antonescu, Cristina R. ; Benayed, Ryma ; Ladanyi, Marc ; Lee, Cheng-Han ; Chiang, Sarah
Publisher:New York: Elsevier Inc
Journal title:Modern pathology, 2021-05, Vol.34 (5), p.1008-1016
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BCOR is a robust diagnostic immunohistochemical marker of genetically diverse high-grade endometrial stromal sarcoma, including tumors exhibiting variant morphology
Author / Creator:Chiang, Sarah ; Lee, Cheng-Han ; Stewart, Colin J R ; Oliva, Esther ; Hoang, Lien N ; Ali, Rola H ; Hensley, Martee L ; Arias-Stella, Javier A ; Frosina, Denise ; Jungbluth, Achim A ; Benayed, Ryma ; Ladanyi, Marc ; Hameed, Meera ; Wang, Lu ; Kao, Yu-Chien ; Antonescu, Cristina R ; Soslow, Robert A
Publisher:New York: Nature Publishing Group US
Journal title:Modern pathology, 2017-09, Vol.30 (9), p.1251-1261
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Androgen receptor splice variant-7 in breast cancer: clinical and pathologic correlations
Author / Creator:Ferguson, Donna C. ; Mata, Douglas A. ; Tay, Timothy KY ; Traina, Tiffany A. ; Gucalp, Ayca ; Chandarlapaty, Sarat ; D’Alfonso, Timothy M. ; Brogi, Edi ; Mullaney, Kerry ; Ladanyi, Marc ; Arcila, Maria E. ; Benayed, Ryma ; Ross, Dara S.
Publisher:New York: Nature Publishing Group US
Journal title:Modern pathology, 2022-03, Vol.35 (3), p.396-402
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EWSR1-PATZ1 fusion renal cell carcinoma: a recurrent gene fusion characterizing thyroid-like follicular renal cell carcinoma
Author / Creator:Al-Obaidy, Khaleel I. ; Bridge, Julia A. ; Cheng, Liang ; Sumegi, Janos ; Reuter, Victor E. ; Benayed, Ryma ; Hameed, Meera ; Williamson, Sean R. ; Hes, Ondrej ; Alruwaii, Fatimah I. ; Segal, Jeremy P. ; Wanjari, Pankhuri ; Idrees, Muhammad T. ; Nassiri, Mehdi ; Eble, John N. ; Grignon, David J.
Publisher:New York: Elsevier Inc
Journal title:Modern pathology, 2021-10, Vol.34 (10), p.1921-1934
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Myositis ossificans-like soft tissue aneurysmal bone cyst: a clinical, radiological, and pathological study of seven cases with COL1A1-USP6 fusion and a novel ANGPTL2-USP6 fusion
Author / Creator:Zhang, Lingxin ; Hwang, Sinchun ; Benayed, Ryma ; Zhu, Guo Gord ; Mullaney, Kerry A. ; Rios, Kelly M. ; Sukhadia, Purvil Y. ; Agaram, Narasimhan ; Zhang, Yanming ; Bridge, Julia A. ; Healey, John H. ; Athanasian, Edward A. ; Hameed, Meera
Publisher:New York: Nature Publishing Group US
Journal title:Modern pathology, 2020-08, Vol.33 (8), p.1492-1504
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Optimizing Workflows and Processing of Cytologic Samples for Comprehensive Analysis by Next-Generation Sequencing: Memorial Sloan Kettering Cancer Center Experience
Author / Creator:Tian, Shaozhou Ken ; Killian, J Keith ; Rekhtman, Natasha ; Benayed, Ryma ; Middha, Sumit ; Ladanyi, Marc ; Lin, Oscar ; Arcila, Maria E
Publisher:United States: College of American Pathologists
Journal title:Archives of pathology & laboratory medicine (1976), 2016-11, Vol.140 (11), p.1200-1205
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Comprehensive detection of germline variants by MSK-IMPACT, a clinical diagnostic platform for solid tumor molecular oncology and concurrent cancer predisposition testing
Author / Creator:Cheng, Donavan T ; Prasad, Meera ; Chekaluk, Yvonne ; Benayed, Ryma ; Sadowska, Justyna ; Zehir, Ahmet ; Syed, Aijazuddin ; Wang, Yan Elsa ; Somar, Joshua ; Li, Yirong ; Yelskaya, Zarina ; Wong, Donna ; Robson, Mark E ; Offit, Kenneth ; Berger, Michael F ; Nafa, Khedoudja ; Ladanyi, Marc ; Zhang, Liying
Publisher:England: BioMed Central
Journal title:BMC medical genomics, 2017-05, Vol.10 (1), p.33-33, Article 33
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A deep multiple instance learning framework improves microsatellite instability detection from tumor next generation sequencing
Author / Creator:Ziegler, John ; Hechtman, Jaclyn F. ; Rana, Satshil ; Ptashkin, Ryan N. ; Jayakumaran, Gowtham ; Middha, Sumit ; Chavan, Shweta S. ; Vanderbilt, Chad ; DeLair, Deborah ; Casanova, Jacklyn ; Shia, Jinru ; DeGroat, Nicole ; Benayed, Ryma ; Ladanyi, Marc ; Berger, Michael F. ; Fuchs, Thomas J. ; Brannon, A. Rose ; Zehir, Ahmet
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2025-01, Vol.16 (1), p.136-11, Article 136
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TSC2-mutant uterine sarcomas with JAZF1-SUZ12 fusions demonstrate hybrid features of endometrial stromal sarcoma and PEComa and are responsive to mTOR inhibition
Author / Creator:Chiang, Sarah ; Vasudevaraja, Varshini ; Serrano, Jonathan ; Stewart, Colin J. R. ; Oliva, Esther ; Momeni-Boroujeni, Amir ; Jungbluth, Achim A. ; Da Cruz Paula, Arnaud ; da Silva, Edaise M. ; Weigelt, Britta ; Park, Kay J. ; Soslow, Robert A. ; Murali, Rajmohan ; Ellenson, Lora H. ; Benayed, Ryma ; Ladanyi, Marc ; Abu-Rustum, Nadeem R. ; Dickson, Mark A. ; Cohen, Seth ; Aghajanian, Carol ; Hensley, Martee L. ; Lee, Cheng-Han ; Snuderl, Matija ; Konner, Jason A.
Publisher:New York: Nature Publishing Group US
Journal title:Modern pathology, 2022-01, Vol.35 (1), p.117-127
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Mutant-RB1 circulating tumor DNA in the blood of unilateral retinoblastoma patients: What happens during enucleation surgery: A pilot study
Author / Creator:Abramson, David H ; Mandelker, Diana L ; Brannon, A Rose ; Dunkel, Ira J ; Benayed, Ryma ; Berger, Michael F ; Arcila, Maria E ; Ladanyi, Marc ; Friedman, Danielle Novetsky ; Jayakumaran, Gowtham ; Diosdado, Monica S ; Robbins, Melissa A ; Haggag-Lindgren, Dianna ; Shukla, Neerav ; Walsh, Michael F ; Kothari, Prachi ; Tsui, Dana W Y ; Francis, Jasmine H
Publisher:United States: Public Library of Science
Journal title:PloS one, 2023-02, Vol.18 (2), p.e0271505-e0271505
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Genetic and epigenetic landscape of IDH-wildtype glioblastomas with FGFR3-TACC3 fusions
Author / Creator:Mata, Douglas A ; Benhamida, Jamal K ; Lin, Andrew L ; Vanderbilt, Chad M ; Yang, Soo-Ryum ; Villafania, Liliana B ; Ferguson, Donna C ; Jonsson, Philip ; Miller, Alexandra M ; Tabar, Viviane ; Brennan, Cameron W ; Moss, Nelson S ; Sill, Martin ; Benayed, Ryma ; Mellinghoff, Ingo K ; Rosenblum, Marc K ; Arcila, Maria E ; Ladanyi, Marc ; Bale, Tejus A
Publisher:England: BioMed Central Ltd
Journal title:Acta neuropathologica communications, 2020-11, Vol.8 (1), p.186-186, Article 186
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IL-6 pathway-driven investigation of response to IL-6 receptor inhibition in rheumatoid arthritis
Author / Creator:Wang, Jianmei ; Platt, Adam ; Upmanyu, Ruchi ; Germer, Søren ; Lei, Guiyuan ; Rabe, Christina ; Benayed, Ryma ; Kenwright, Andrew ; Hemmings, Andrew ; Martin, Mitchell ; Harari, Olivier
Publisher:England: BMJ Publishing Group LTD
Journal title:BMJ open, 2013-08, Vol.3 (8), p.e003199-e003199
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Diagnosis of known sarcoma fusions and novel fusion partners by targeted RNA sequencing with identification of a recurrent ACTB-FOSB fusion in pseudomyogenic hemangioendothelioma
Author / Creator:Zhu, Guo ; Benayed, Ryma ; Ho, Caleb ; Mullaney, Kerry ; Sukhadia, Purvil ; Rios, Kelly ; Berry, Ryan ; Rubin, Brian P. ; Nafa, Khedoudja ; Wang, Lu ; Klimstra, David S. ; Ladanyi, Marc ; Hameed, Meera R.
Publisher:New York: Nature Publishing Group US
Journal title:Modern pathology, 2019-05, Vol.32 (5), p.609-620
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NTRK fusion detection across multiple assays and 33,997 cases: diagnostic implications and pitfalls

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DNAJB1-PRKACA fusions occur in oncocytic pancreatic and biliary neoplasms and are not specific for fibrolamellar hepatocellular carcinoma

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Structure–function analysis of oncogenic EGFR Kinase Domain Duplication reveals insights into activation and a potential approach for therapeutic targeting

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Retained mismatch repair protein expression occurs in approximately 6% of microsatellite instability-high cancers and is associated with missense mutations in mismatch repair genes

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Interplay between chromosomal alterations and gene mutations shapes the evolutionary trajectory of clonal hematopoiesis

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ZC3H7B-BCOR high-grade endometrial stromal sarcomas: a report of 17 cases of a newly defined entity

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High-grade transformation of low-grade endometrial stromal sarcomas lacking YWHAE and BCOR genetic abnormalities

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Targeted RNA expression profiling identifies high-grade endometrial stromal sarcoma as a clinically relevant molecular subtype of uterine sarcoma

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BCOR is a robust diagnostic immunohistochemical marker of genetically diverse high-grade endometrial stromal sarcoma, including tumors exhibiting variant morphology

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Androgen receptor splice variant-7 in breast cancer: clinical and pathologic correlations

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EWSR1-PATZ1 fusion renal cell carcinoma: a recurrent gene fusion characterizing thyroid-like follicular renal cell carcinoma

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Myositis ossificans-like soft tissue aneurysmal bone cyst: a clinical, radiological, and pathological study of seven cases with COL1A1-USP6 fusion and a novel ANGPTL2-USP6 fusion

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Optimizing Workflows and Processing of Cytologic Samples for Comprehensive Analysis by Next-Generation Sequencing: Memorial Sloan Kettering Cancer Center Experience

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Comprehensive detection of germline variants by MSK-IMPACT, a clinical diagnostic platform for solid tumor molecular oncology and concurrent cancer predisposition testing

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A deep multiple instance learning framework improves microsatellite instability detection from tumor next generation sequencing

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TSC2-mutant uterine sarcomas with JAZF1-SUZ12 fusions demonstrate hybrid features of endometrial stromal sarcoma and PEComa and are responsive to mTOR inhibition

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Mutant-RB1 circulating tumor DNA in the blood of unilateral retinoblastoma patients: What happens during enucleation surgery: A pilot study

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Genetic and epigenetic landscape of IDH-wildtype glioblastomas with FGFR3-TACC3 fusions

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IL-6 pathway-driven investigation of response to IL-6 receptor inhibition in rheumatoid arthritis

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Diagnosis of known sarcoma fusions and novel fusion partners by targeted RNA sequencing with identification of a recurrent ACTB-FOSB fusion in pseudomyogenic hemangioendothelioma

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