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Nadeem Riaz
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Journal Articles

Abstract 1473: POLQ facilitates annealing mediated long deletions at chromosomal break in homologous recombination deficient cancers

Manisha Jalan, Erika S. Buechelmaier, Jonathan Rafailov, Yingjie Zhu, Xin Pei, Sebastian Brylka, Joan Gomez-Aguilar, Niamh McDermott, Nadeem Riaz, Marcin Imielinski, Simon N. Powell
Journal: Cancer Research
Cancer Res (2025) 85 (8_Supplement_1): 1473.
https://doi.org/10.1158/1538-7445.AM2025-1473
Published: 21 April 2025
View articletitled, Abstract 1473: POLQ facilitates annealing mediated long deletions at chromosomal break in homologous recombination deficient cancers
Journal Articles

Abstract 2902: Systematic mapping of chemo-genomic interactions between DNA damaging agents and DNA damage repair genes with targeted CRISPR knockout screening

Collin D. Heer, Spenser S. Johnson, James L. Elia, Sam Friedman, Xin Pei, Sofia R. Arbelaez, Ranjini Sundaram, Vijay Menon, Joseph Edmonds, Karlie Lucas, Nadeem Riaz, Susan E. Gueble, Ranjit S. Bindra
Journal: Cancer Research
Cancer Res (2025) 85 (8_Supplement_1): 2902.
https://doi.org/10.1158/1538-7445.AM2025-2902
Published: 21 April 2025
View articletitled, Abstract 2902: Systematic mapping of chemo-genomic interactions between DNA damaging agents and DNA damage repair genes with targeted CRISPR knockout screening
Journal Articles

A Genomics-Driven Artificial Intelligence – Based Model Classifies Breast Invasive Lobular Carcinoma and Discovers CDH1 Inactivating Mechanisms

Fresia Pareja, Higinio Dopeso, Yi Kan Wang, Andrea M. Gazzo, David N. Brown, Monami Banerjee, Pier Selenica, Jan H. Bernhard, Fatemeh Derakhshan, Edaise M. da Silva, Lorraine Colon-Cartagena, Thais Basili, Antonio Marra, Jillian Sue, Qiqi Ye, Arnaud Da Cruz Paula, Selma Yeni Yildirim, Xin Pei, Anton Safonov, Hunter Green, Kaitlyn Y. Gill, Yingjie Zhu, Matthew C.H. Lee, Ran A. Godrich, Adam Casson, Britta Weigelt, Nadeem Riaz, Hannah Y. Wen, Edi Brogi, Diana L. Mandelker, Matthew G. Hanna, Jeremy D. Kunz, Brandon Rothrock, Sarat Chandarlapaty, Christopher Kanan, Joe Oakley, David S. Klimstra, Thomas J. Fuchs, Jorge S. Reis-Filho
Journal: Cancer Research
Cancer Res (2024) 84 (20): 3478–3489.
https://doi.org/10.1158/0008-5472.CAN-24-1322
Published: 15 October 2024
View articletitled, A Genomics-Driven Artificial Intelligence – Based Model Classifies Breast Invasive Lobular Carcinoma and Discovers CDH1 Inactivating Mechanisms
Open the PDF for A Genomics-Driven Artificial Intelligence – Based Model Classifies Breast Invasive Lobular Carcinoma and Discovers CDH1 Inactivating Mechanisms in another window
Includes: Supplementary data
Journal Articles

Abstract PO3-24-06: Integrative genomic and CRISPR screen analysis identifies synthetic viability interactions in BRCA1/2 cancers

Yingjie Zhu, Xin Pei, Ardijana Novaj, Jeremy Setton, Fatemeh Derakhshan, Pier Selenica, Niamh McDermott, Sonali Sinha, Atif Khan, Simon Powell, Jorge Reis-Filho, Nadeem Riaz
Journal: Cancer Research
Cancer Res (2024) 84 (9_Supplement): PO3-24-06.
https://doi.org/10.1158/1538-7445.SABCS23-PO3-24-06
Published: 02 May 2024
View articletitled, Abstract PO3-24-06: Integrative genomic and CRISPR screen analysis identifies synthetic viability interactions in BRCA1/2 cancers
Journal Articles

Abstract PO3-14-08: Metaplastic Breast Cancer: Whole Genome Sequencing Analysis and Emerging Therapeutic Targets

Fresia Pareja, Andrea Gazzo, Higinio Dopeso, David Brown, Pier Selenica, Yingjie Zhu, Juan Blanco-Heredia, Laxmi Gusain, Xin Pei, Giacomo Montagna, Nour Abuhadra, Hanna Y Wen, Edi Brogi, Nadeem Riaz, Sarat Chandarlapaty, Maurizio Scaltriti, Larry Norton, Simon Powell, Jorge Reis-Filho, Britta Weigelt
Journal: Cancer Research
Cancer Res (2024) 84 (9_Supplement): PO3-14-08.
https://doi.org/10.1158/1538-7445.SABCS23-PO3-14-08
Published: 02 May 2024
View articletitled, Abstract PO3-14-08: Metaplastic Breast Cancer: Whole Genome Sequencing Analysis and Emerging Therapeutic Targets
Journal Articles

Abstract GS03-04: Novel Mechanisms of CDH1 Inactivation in Breast Invasive Lobular Carcinoma Unveiled by the Integration of Artificial Intelligence and Genomics

Fresia Pareja, Higinio Dopeso, Yikan Wang, Andrea Gazzo, David Brown, Pier Selenica, Jan Bernhard, Fatemeh Derakhshan, Edaise M. da Silva, Lorraine Colon-Cartagena, Thais Basili, Antonio Marra, Jillian Sue, Qiqi Ye, Arnaud Da Cruz Paula, Selma Yeni, Xin Pei, Hunter Green, Kaitlyn Gill, Yingjie Zhu, Matthew Lee, Ran Godrich, Adam Casson, Britta Weigelt, Nadeem Riaz, Hanna Y Wen, Edi Brogi, Matthew Hanna, Diana Mandelker, Jeremy Kunz, Brandon Rothrock, Sarat Chandarlapaty, Christopher Kanan, Gerard Oakley III, David Klimstra, Thomas Fuchs, Jorge Reis-Filho
Journal: Cancer Research
Cancer Res (2024) 84 (9_Supplement): GS03-04.
https://doi.org/10.1158/1538-7445.SABCS23-GS03-04
Published: 02 May 2024
View articletitled, Abstract GS03-04: Novel Mechanisms of CDH1 Inactivation in Breast Invasive Lobular Carcinoma Unveiled by the Integration of Artificial Intelligence and Genomics
Journal Articles

Abstract 1260: Collapse of cancer cell micronuclei from oxidative damage

Melody Di Bona, Yanyang Chen, Albert Agustinus, Matthew Deyell, Mercedes A. Duran, Christy Hong, James Hickling, Daniel Bronder, Sara Martin, Nadeem Riaz, Bill Diplas, Manisha Jalan, Nancy Lee, Alban Ordureau, Benjamin Izar, Ashley Laughney, Simon Powell, Stefano Santaguida, John Maciejowski, Thomas Jeitner, Samuel Bakhoum
Journal: Cancer Research
Cancer Res (2024) 84 (6_Supplement): 1260.
https://doi.org/10.1158/1538-7445.AM2024-1260
Published: 22 March 2024
View articletitled, Abstract 1260: Collapse of cancer cell micronuclei from oxidative damage
Journal Articles

Abstract 5170: Novel dSTRIDE-HR assays can accurately assess DNA repair defects in human cancers and distinguish HR status of tumors

Monika Jarosz, Zsombor Prucsi, Franek Sierpowski, Karolina Stepien, Sophie Ostrowska-Paton, Szymon Koman, Nadeem Riaz, Simon Powell, Fresia Pareja, Edaise da Silva, Magdalena Kordon-Kiszala, Kamil Solarczyk
Journal: Cancer Research
Cancer Res (2024) 84 (6_Supplement): 5170.
https://doi.org/10.1158/1538-7445.AM2024-5170
Published: 22 March 2024
View articletitled, Abstract 5170: Novel dSTRIDE-HR assays can accurately assess DNA repair defects in human cancers and distinguish HR status of tumors
Journal Articles

Abstract B045: Deep genomic and single cell molecular profiles define immunogenic pancreatic cancer

Wungki Park, Shigeaki Umeda, Catherine O'Connor, Haochen Zhang, Roshan Sharma, Allison Richards, Yingjie Zhu, Elias-Ramzey Karnoub, Xin Pei, Anna M. Varghese, Kevin Soares, Alejandro Jimenez Sanchez, Hulya Ozkan Sahin, Kenneth Yu, Vinod P. Balachandran, Joanne Chou, Fergus Keane, David Kelsen, Olca Basturk, Chaitanya Bandlamudi, Marinela Capanu, Tal Nawy, Michael Berger, Ronan Chaligne, Ghassan Abou-Alfa, Jorge S. Reis-Filho, Nadeem Riaz, Dana Pe'er, Christine A. Iacobuzio-Donahue, Eileen M. O'Reilly
Journal: Cancer Research
Cancer Res (2024) 84 (2_Supplement): B045.
https://doi.org/10.1158/1538-7445.PANCA2023-B045
Published: 16 January 2024
View articletitled, Abstract B045: Deep genomic and single cell molecular profiles define immunogenic pancreatic cancer
Journal Articles

Abstract A002: Genotype-directed synthetic cytotoxicity of ATR inhibition with radiotherapy

Victor Ng, Sonali Sinha, Ardijana Novaj, Jennifer Ma, Niamh McDermott, Ana Longhini, Rui Gardner, Ezra Rosen, Simon Powell, Diana Mandelker, Atif Khan, Jeremy Setton, Anne Roulston, Stephen Morris, Maria Koehler, Nancy Lee, Jorge Reis-Filho, Nadeem Riaz
Journal: Cancer Research
Cancer Res (2024) 84 (1_Supplement): A002.
https://doi.org/10.1158/1538-7445.DNAREPAIR24-A002
Published: 09 January 2024
View articletitled, Abstract A002: Genotype-directed synthetic cytotoxicity of ATR inhibition with radiotherapy
Journal Articles

Abstract 6421: Molecular profiles and single cell analysis identify immunogenic pancreatic ductal adenocarcinoma (iPDAC)

Wungki Park, Catherine O'Connor, Shigeaki Umeda, Roshan Sharma, Yingjie Zhu, Elias-Ramzey Karnoub, Anna Varghese, Kevin C. Soares, Alejandro Jimemez, Asli Yavas, Kenneth H. Yu, Balachandran P. Vinod, Joanne F. Chou, Danny N. Khalil, Kelsen David, Hulya Sahin Ozkan, Olca Basturk, Marinela Capanu, Tal Nawy, Michael F. Berger, Ghassan K. Abou-Alfa, Jorge S. Reis-Filho, Ronan Chaligne, Nadeem Riaz, Dana Pe'er, Christine Iacobuzio-Donahue, Eileen M. O'Reilly
Journal: Cancer Research
Cancer Res (2023) 83 (7_Supplement): 6421.
https://doi.org/10.1158/1538-7445.AM2023-6421
Published: 04 April 2023
View articletitled, Abstract 6421: Molecular profiles and single cell analysis identify immunogenic pancreatic ductal adenocarcinoma (iPDAC)
Journal Articles

Abstract 1125: Neoantigen immunogenicity landscapes and evolution of tumor ecosystems during immunotherapy with nivolumab

Tyler Joseph Alban, Nadeem Riaz, Prerana Parthasarathy, Vlad Makarov, Slav Kendall, Seong-Keun Yoo, Rachna Shah, Nils Weinhold, Raghvendra Srivastava, Xiaoxiao Ma, Chirag Krishna, Edward Garon, Wallace Akerley, Ben Creelan, Nivedita Aanuren, Diego Chowell, William Geese, Naiyer Rizvi, Timothy Chan
Journal: Cancer Research
Cancer Res (2023) 83 (7_Supplement): 1125.
https://doi.org/10.1158/1538-7445.AM2023-1125
Published: 04 April 2023
View articletitled, Abstract 1125: Neoantigen immunogenicity landscapes and evolution of tumor ecosystems during immunotherapy with nivolumab
Journal Articles

Colorectal Cancer Develops Inherent Radiosensitivity That Can Be Predicted Using Patient-Derived Organoids

Kuo-Shun Hsu, Mohammad Adileh, Maria Laura Martin, Vladimir Makarov, Jiapeng Chen, Chao Wu, Sahra Bodo, Stefan Klingler, Charles-Etienne Gabriel Sauvé, Bryan C. Szeglin, J. Joshua Smith, Zvi Fuks, Nadeem Riaz, Timothy A. Chan, Makoto Nishimura, Philip B. Paty, Richard Kolesnick
Journal: Cancer Research
Cancer Res (2022) 82 (12): 2298–2312.
https://doi.org/10.1158/0008-5472.CAN-21-4128
Published: 15 June 2022
View articletitled, Colorectal Cancer Develops Inherent Radiosensitivity That Can Be Predicted Using Patient-Derived Organoids
Open the PDF for Colorectal Cancer Develops Inherent Radiosensitivity That Can Be Predicted Using Patient-Derived Organoids in another window
Includes: Supplementary data
Journal Articles

Abstract 5688: RNA-mediated DNA repair: A novel repair pathway in homologous recombination-deficient cancers

Manisha Jalan, Juber Patel, Kyrie S Olsen, Sana Ahmed-Seghir, Daniel S Higginson, Jorge S Reis-Filho, Nadeem Riaz, Simon N Powell
Journal: Cancer Research
Cancer Res (2022) 82 (12_Supplement): 5688.
https://doi.org/10.1158/1538-7445.AM2022-5688
Published: 15 June 2022
View articletitled, Abstract 5688: RNA-mediated DNA repair: A novel repair pathway in homologous recombination-deficient cancers
Journal Articles

Abstract PD1-06: Apobec mutagenesis is a pervasive feature of poor prognosis breast cancer associating with ESR1 wild type, endocrine resistant disease

Antonio Marra, Andrea Gazzo, Pier Selenica, Xin Pei, Avantika Gupta, Fresia Pareja, Giuseppe Curigliano, Reuben Harris, Nadeem Riaz, Jorge S. Reis-Filho, Sarat Chandarlapaty
Journal: Cancer Research
Cancer Res (2022) 82 (4_Supplement): PD1-06.
https://doi.org/10.1158/1538-7445.SABCS21-PD1-06
Published: 15 February 2022
View articletitled, Abstract PD1-06: Apobec mutagenesis is a pervasive feature of poor prognosis breast cancer associating with ESR1 wild type, endocrine resistant disease
Journal Articles

Abstract P2-06-04: Pathognomonic long molecule footprints of backup repair pathways in homologous recombination deficient cancers

Jeremy Setton, Kevin Hadi, Huasong Tian, Arnaud Da Cruz Paula, Joel Rosiene, Zi-Ning Choo, Julie Behr, Xiaotong Yao, Olivier Elemento, Britta Weigelt, Nadeem Riaz, Jorge S Reis-Filho, Marcin Imielinski, Simon N Powell
Journal: Cancer Research
Cancer Res (2022) 82 (4_Supplement): P2-06-04.
https://doi.org/10.1158/1538-7445.SABCS21-P2-06-04
Published: 15 February 2022
View articletitled, Abstract P2-06-04: Pathognomonic long molecule footprints of backup repair pathways in homologous recombination deficient cancers
Journal Articles

Abstract 3557: Genetic algorithms to identify homologous recombination deficiency (HRD) in pancreas adenocarcinoma

Wungki Park, Jiapeng Chen, Joanne F. Chou, Christine Iacobuzio-Donague, Nadeem Riaz, Eileen M. O'Reilly
Journal: Cancer Research
Cancer Res (2020) 80 (16_Supplement): 3557.
https://doi.org/10.1158/1538-7445.AM2020-3557
Published: 15 August 2020
View articletitled, Abstract 3557: Genetic algorithms to identify homologous recombination deficiency (HRD) in pancreas adenocarcinoma
Journal Articles

Abstract P4-05-01: Massively parallel sequencing analysis of microsatellite instability in breast cancer

Pier Selenica, Fresia Pareja, Lorenzo Ferrando, David N Brown, Nadeem Riaz, Britta Weigelt, Joshua Z Drago, Mark E Robson, Pedram Razavi, Sarat Chandarlapaty, Jorge S Reis-Filho
Journal: Cancer Research
Cancer Res (2020) 80 (4_Supplement): P4-05-01.
https://doi.org/10.1158/1538-7445.SABCS19-P4-05-01
Published: 15 February 2020
View articletitled, Abstract P4-05-01: Massively parallel sequencing analysis of microsatellite instability in breast cancer
Journal Articles

Abstract P6-09-01: RAD51B loss-of-function variants confer susceptibility to hereditary breast and ovarian cancers and result in tumors with genomic features of homologous recombination repair defects

Diana SReis-FilhoReis-Filho Mandelker, Semanti Mukherjee, Jeremy Setton, Pier Selenica, Yelena Kemel, Ozge Ceyhan-Birsoy, Margaret Sheehan, Kaitlyn Tkachuk, David N Brown, Simon Powell, Britta Weigelt, Mark E Robson, Nadeem Riaz, Kenneth Offit, Jorge S Reis-Filho
Journal: Cancer Research
Cancer Res (2020) 80 (4_Supplement): P6-09-01.
https://doi.org/10.1158/1538-7445.SABCS19-P6-09-01
Published: 15 February 2020
View articletitled, Abstract P6-09-01: RAD51B loss-of-function variants confer susceptibility to hereditary breast and ovarian cancers and result in tumors with genomic features of homologous recombination repair defects
Journal Articles

Abstract 4619: Integrated genomic analysis of Hurthle cell carcinoma reveals TMEM233/PRKAB1 fusion as a novel oncogenic driver

Yiyu Dong, Ian Ganly, Vladimir Makarov, Fengshen Kuo, Shyamprasad Deraje, Ed Reznik, Venkatraman Seshan, Gouri Nanjangud, Luc Morris, Nadeem Riaz, Eric Sherman, Ronald Ghossein, James Fagin, Timothy Chan
Journal: Cancer Research
Cancer Res (2018) 78 (13_Supplement): 4619.
https://doi.org/10.1158/1538-7445.AM2018-4619
Published: 01 July 2018
View articletitled, Abstract 4619: Integrated genomic analysis of Hurthle cell carcinoma reveals TMEM233/PRKAB1 fusion as a novel oncogenic driver