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Journal Articles

Abstract A044: Immune profiling tools for adult and pediatric cancer: From whole genome and transcriptome sequencing to immunotherapy clinical trial design

Yaoqing Shen, Chelsea Mayoh, Kathleen Wee, Erin Pleasance, Emma Titmuss, Richard Corbett, Laura Williamson, Zakhar Krekhno, Arash Nabbi, Raoul Santiago, Stephanie Bianco, Scott Davidson, Adam Shlien, Kyoko E Yuki, Denise Connolly, Daniel Morgenstern, Melika Bonakdar, Greg Taylor, Veronika Csizmok, Cameron J Grisdale, Melissa McConechy, Jing Xu, John H Dupuis, Karen Mungall, Eric Chuah, Andrew Mungall, Jessica Nelson, Stephen Yip, Sophie Sun, Howard Lim, Daniel Renouf, Janessa Laskin, Sarah Cohen-Gogo, Shahrad R Rassekh, Rebecca J Deyell, Marco A Marra, Paul G Ekert, Steven JM Jones
Journal: Cancer Research
Cancer Res (2025) 85 (5_Supplement): A044.
https://doi.org/10.1158/1538-7445.GENFUNC25-A044
Published: 11 March 2025
View article titled, Abstract A044: Immune profiling tools for adult and pediatric cancer: From whole genome and transcriptome sequencing to immunotherapy clinical trial design
Journal Articles

Abstract B001: Timing the development of chemoresistance in relapsed pediatric cancer with mutational signatures

Sasha Blay, Mehdi Layeghifard, Scott Davidson, David Chen, Astra Schwertschkow, Vijay Ramaswamy, Michael Taylor, Elli Papaemmanuil, Anita Villani, David Malkin, Ludmil Alexandrov, Mark Cowley, Adam Shlien
Journal: Cancer Research
Cancer Res (2024) 84 (17_Supplement): B001.
https://doi.org/10.1158/1538-7445.PEDIATRIC24-B001
Published: 05 September 2024
View article titled, Abstract B001: Timing the development of chemoresistance in relapsed pediatric cancer with mutational signatures
Journal Articles

Abstract B015: Transcriptome-based assessment of immune infiltration for molecular selection of pediatric patients with solid tumors for combination immune checkpoint inhibitor therapy

Yaoqing Shen, Chelsea Mayoh, Arash Nabbi, Raoul Santiago, Stephanie Bianco, Iain R. Bancarz, Laura Williamson, Richard Corbett, Zakhar Krekhno, Scott Davidson, Alexander Fortuna, Kyoko E. Yuki, Denise Connolly, Daniel Morgenstern, Paul G. Ekert, Adam Shlien, Steven J.M. Jones, Rebecca J. Deyell, Sarah Cohen-Gogo
Journal: Cancer Research
Cancer Res (2024) 84 (17_Supplement): B015.
https://doi.org/10.1158/1538-7445.PEDIATRIC24-B015
Published: 05 September 2024
View article titled, Abstract B015: Transcriptome-based assessment of immune infiltration for molecular selection of pediatric patients with solid tumors for combination immune checkpoint inhibitor therapy
Journal Articles

Abstract B026: Infant ALL without KMT2A rearrangements harbor clinically relevant alterations and share common origins with childhood ALL

Matthew Zatzman, Jennifer Seelisch, Federico Comitani, Fabio Fuligni, Scott Davidson, Kyoko E. Yuki, Lisa-Monique Edwards, Ledia Brunga, Erin Guest, Stephen P. Hunger, Mignon L. Loh, Elizabeth A. Raetz, John Chen, Jack Bartram, Johann K. Hitzler, Patrick A. Brown, Sumit Gupta, Adam Shlien
Journal: Cancer Research
Cancer Res (2024) 84 (17_Supplement): B026.
https://doi.org/10.1158/1538-7445.PEDIATRIC24-B026
Published: 05 September 2024
View article titled, Abstract B026: Infant ALL without KMT2A rearrangements harbor clinically relevant alterations and share common origins with childhood ALL
Journal Articles

Abstract B070: Chemotherapy is a major mutagen in relapsed childhood cancer

Mehdi Layeghifard, Nicholas Light, Erik Bergstrom, Marcos Diaz Gay, Mathepan J. Mahendralingam, Sasha Blay, Scott Davidson, Pedro L. Ballester, Rawan Hammad, Noemi Fuentes Bolanos, Shimaa Nassif, Nirav H. Thacker, Chelsea Mayoh, David Malkin, Elli Papaemmanuil, Mark J. Cowley, Anita Villani, Ludmil B. Alexandrov, Adam Shlien
Journal: Cancer Research
Cancer Res (2024) 84 (17_Supplement): B070.
https://doi.org/10.1158/1538-7445.PEDIATRIC24-B070
Published: 05 September 2024
View article titled, Abstract B070: Chemotherapy is a major mutagen in relapsed childhood cancer
Journal Articles

Abstract B034: A transcriptional atlas provides a universal diagnostic platform for mesenchymal tumors and validation of preclinical models

Joshua O. Nash, Pedro L. Ballestar, Scott Davidson, Astra Schwertschkow, Yael Babichev, Jodi Lees, Noa Alon, Nalan Gokgoz, Stephen M. Yu, Kyoko Yuki, Miranda Lorenti, Zhanqin Liu, Alaina McGoey, Famida Spatare, Bernard Castro, Kim Tsoi, Hagit Peretz-Soroka, Jack Brzezinski, Anita Villani, Albiruni Razaq, Abha Gupta, Elizabeth Demicco, Joanna Przybyl, Matt van de Rijn, Livia Garzia, Jay Wunder, Irene L. Andrulis, David Malkin, Rose Chami, Brendan C. Dickson, Rebecca A. Gladdy, Adam Shlien
Journal: Cancer Research
Cancer Res (2024) 84 (17_Supplement): B034.
https://doi.org/10.1158/1538-7445.PEDIATRIC24-B034
Published: 05 September 2024
View article titled, Abstract B034: A transcriptional atlas provides a universal diagnostic platform for mesenchymal tumors and validation of preclinical models
Journal Articles

Abstract 3951: Timing the development of chemoresistance in relapsed pediatric cancer

Sasha Blay, Mehdi Layeghifard, Scott Davidson, David Chen, Astra Schwertschkow, Vijay Ramaswamy, Michael Taylor, Elli Papaemmanuil, Anita Villani, David Malkin, Ludmil Alexandrov, Mark Cowley, Adam Shlien
Journal: Cancer Research
Cancer Res (2024) 84 (6_Supplement): 3951.
https://doi.org/10.1158/1538-7445.AM2024-3951
Published: 22 March 2024
View article titled, Abstract 3951: Timing the development of chemoresistance in relapsed pediatric cancer
Journal Articles

The BRD4–NUT Fusion Alone Drives Malignant Transformation of NUT Carcinoma

R. Taylor Durall, Julianna Huang, Luke Wojenski, Yeying Huang, Prafulla C. Gokhale, Brittaney A. Leeper, Joshua O. Nash, Pedro L. Ballester, Scott Davidson, Adam Shlien, Emmanuel Sotirakis, Fabien Bertaux, Vincent Dubus, Jia Luo, Catherine J. Wu, Derin B. Keskin, Kyle P. Eagen, Geoffrey I. Shapiro, Christopher A. French
Journal: Cancer Research
Cancer Res (2023) 83 (23): 3846–3860.
https://doi.org/10.1158/0008-5472.CAN-23-2545
Published: 01 December 2023
View article titled, The BRD4–NUT Fusion Alone Drives Malignant Transformation of NUT Carcinoma
Open the PDF for The BRD4–NUT Fusion Alone Drives Malignant Transformation of NUT Carcinoma in another window
Includes: Supplementary data
Journal Articles

Diverse Oncogenic Fusions and Distinct Gene Expression Patterns Define the Genomic Landscape of Pediatric Papillary Thyroid Carcinoma

Ana Stosic, Fabio Fuligni, Nathaniel D. Anderson, Scott Davidson, Richard de Borja, Meryl Acker, Vito Forte, Paolo Campisi, Evan J. Propst, Nikolaus E. Wolter, Rose Chami, Ozgur Mete, David Malkin, Adam Shlien, Jonathan D. Wasserman
Journal: Cancer Research
Cancer Res (2021) 81 (22): 5625–5637.
https://doi.org/10.1158/0008-5472.CAN-21-0761
Published: 15 November 2021
View article titled, Diverse Oncogenic Fusions and Distinct Gene Expression Patterns Define the Genomic Landscape of Pediatric Papillary Thyroid Carcinoma
Open the PDF for Diverse Oncogenic Fusions and Distinct Gene Expression Patterns Define the Genomic Landscape of Pediatric Papillary Thyroid Carcinoma in another window
Includes: Supplementary data
Journal Articles

Abstract B07: Prospective germline next-generation sequencing in pediatric patients with neuroblastoma identifies frequent alterations in genes involved in DNA damage repair

Sarah Cohen-Gogo, Karin Langenberg-Ververgaert, Anita Villani, Winnie Lo, Ted Young, Nisha Kanwar, Scott Davidson, Nathaniel Anderson, Bailey Gallinger, Mehdi Layeghifard, Larissa Waldman, Daniel Morgenstern, Ledia Brunga, Stephen Meyn, David Malkin, Adam Shlien, Meredith Irwin
Journal: Cancer Research
Cancer Res (2020) 80 (14_Supplement): B07.
https://doi.org/10.1158/1538-7445.PEDCA19-B07
Published: 15 July 2020
View article titled, Abstract B07: Prospective germline next-generation sequencing in pediatric patients with neuroblastoma identifies frequent alterations in genes involved in DNA damage repair