Dubois Lab

Publications

Highlighted

Structural variations in cancer and the 3D genome
Structural variations in cancer and the 3D genome
Frank Dubois, Nikos Sidiropoulos, Joachim Weischenfeldt, Rameen Beroukhim
Nature Reviews Cancer   ·   28 Jun 2022   ·   doi:10.1038/s41568-022-00488-9
Structural variants shape driver combinations and outcomes in pediatric high-grade glioma
Structural variants shape driver combinations and outcomes in pediatric high-grade glioma
Frank P. B. Dubois, Ofer Shapira, Noah F. Greenwald, Travis Zack, Jeremiah Wala, ..., David T. W. Jones, Mark W. Kieran, Keith L. Ligon, Rameen Beroukhim, Pratiti Bandopadhayay
Nature Cancer   ·   04 Jul 2022   ·   doi:10.1038/s43018-022-00403-z

All

2025

Spatial, Temporal, and Molecular Heterogeneity of ADC targets in High-Grade Serous Ovarian Carcinoma
Spatial, Temporal, and Molecular Heterogeneity of ADC targets in High-Grade Serous Ovarian Carcinoma
Xiaoxuan Li, Tobias Janik, Markus Möbs, Stefan Florian, Wolfgang D. Schmitt, ..., Jalid Sehouli, David Horst, Frank Dubois, Ioana Elena Braicu, Mihnea P. Dragomir
openRxiv   ·   05 Dec 2025   ·   doi:10.64898/2025.12.05.25341695
Effective targeting of PDGFRA-altered high-grade glioma with avapritinib
Effective targeting of PDGFRA-altered high-grade glioma with avapritinib
Lisa Mayr, Sina Neyazi, Kallen Schwark, Maria Trissal, Alexander Beck, ..., Lukas Chavez, Julia Furtner, Carl Koschmann, Johannes Gojo, Mariella G. Filbin
Cancer Cell   ·   01 Apr 2025   ·   doi:10.1016/j.ccell.2025.02.018
A sequence context-based approach for classifying tumor structural variants without paired normal samples
A sequence context-based approach for classifying tumor structural variants without paired normal samples
Wolu Chukwu, Siyun Lee, Alexander Crane, Shu Zhang, Sophie Webster, ..., Carlos Rauert, Marcin Imielinski, Rameen Beroukhim, Frank Dubois, Simona Dalin
Cell Reports Methods   ·   01 Mar 2025   ·   doi:10.1016/j.crmeth.2025.100991

2024

Contemporary prognostic signatures and refined risk stratification of gliomas: An analysis of 4400 tumors
Contemporary prognostic signatures and refined risk stratification of gliomas: An analysis of 4400 tumors
Hia S Ghosh, Ruchit V Patel, Eleanor Woodward, Noah F Greenwald, Varun M Bhave, ..., Sandro Santagata, Jill S Barnholtz-Sloan, Keith L Ligon, Rameen Beroukhim, Wenya Linda Bi
Neuro-Oncology   ·   21 Aug 2024   ·   doi:10.1093/neuonc/noae164
Passenger Gene Coamplifications Create Collateral Therapeutic Vulnerabilities in Cancer
Passenger Gene Coamplifications Create Collateral Therapeutic Vulnerabilities in Cancer
Yi Bei, Luca Bramé, Marieluise Kirchner, Raphaela Fritsche-Guenther, Severine Kunz, ..., Jennifer Kirwan, Anja I.H. Hagemann, Philipp Mertins, Jan R. Dörr, Anton G. Henssen
Cancer Discovery   ·   13 Jan 2024   ·   doi:10.1158/2159-8290.CD-23-1189
Aberrant DNA repair reveals a vulnerability in histone H3.3-mutant brain tumors
Aberrant DNA repair reveals a vulnerability in histone H3.3-mutant brain tumors
Giulia Giacomini, Sandra Piquet, Odile Chevallier, Juliette Dabin, Siau-Kun Bai, ..., Valeria Naim, Songtao Jia, Cynthia Hawkins, Beatrice Rondinelli, Sophie E Polo
Nucleic Acids Research   ·   12 Jan 2024   ·   doi:10.1093/nar/gkad1257

2023

Comparison of germline and somatic structural variants in cancers reveal systematic differences in variant generating and selection processes
Comparison of germline and somatic structural variants in cancers reveal systematic differences in variant generating and selection processes
Wolu Chukwu, Siyun Lee, Alexander Crane, Shu Zhang, Sophie Webster, Ipsa Mittra, Marcin Imielinski, Rameen Beroukhim, Frank Dubois, Simona Dalin
openRxiv   ·   12 Oct 2023   ·   doi:10.1101/2023.10.09.561462
<i>ALK</i> Amplification and Rearrangements Are Recurrent Targetable Events in Congenital and Adult Glioblastoma
ALK Amplification and Rearrangements Are Recurrent Targetable Events in Congenital and Adult Glioblastoma
Anne-Florence Blandin, Ross Giglio, Maya Srikanth Graham, Guadalupe Garcia, Seth Malinowski, ..., Ralf Kittler, Robert Bachoo, Pratiti Bandopadhayay, Rameen Beroukhim, Keith L. Ligon
Clinical Cancer Research   ·   13 Feb 2023   ·   doi:10.1158/1078-0432.CCR-21-3521

2022

Assessing and improving the validity of COVID-19 autopsy studies - A multicentre approach to establish essential standards for immunohistochemical and ultrastructural analyses
Assessing and improving the validity of COVID-19 autopsy studies - A multicentre approach to establish essential standards for immunohistochemical and ultrastructural analyses
Susanne Krasemann, Carsten Dittmayer, Saskia von Stillfried, Jenny Meinhardt, Fabian Heinrich, ..., Frank L. Heppner, Peter Boor, Helena Radbruch, Michael Laue, Markus Glatzel
eBioMedicine   ·   01 Sep 2022   ·   doi:10.1016/j.ebiom.2022.104193
Therapeutic targeting of ATR in alveolar rhabdomyosarcoma
Therapeutic targeting of ATR in alveolar rhabdomyosarcoma
Heathcliff Dorado García, Fabian Pusch, Yi Bei, Jennifer von Stebut, Glorymar Ibáñez, ..., Kerstin Haase, Michela DiVirgilio, Monika Scheer, Michael V. Ortiz, Anton G. Henssen
Nature Communications   ·   25 Jul 2022   ·   doi:10.1038/s41467-022-32023-7
FOXR2 Is an Epigenetically Regulated Pan-Cancer Oncogene That Activates ETS Transcriptional Circuits
FOXR2 Is an Epigenetically Regulated Pan-Cancer Oncogene That Activates ETS Transcriptional Circuits
Jessica W. Tsai, Paloma Cejas, Dayle K. Wang, Smruti Patel, David W. Wu, ..., Claudia L. Kleinman, Henry Long, David T.W. Jones, Pratiti Bandopadhayay, Timothy N. Phoenix
Cancer Research   ·   08 Jul 2022   ·   doi:10.1158/0008-5472.CAN-22-0671
Structural variants shape driver combinations and outcomes in pediatric high-grade glioma
Structural variants shape driver combinations and outcomes in pediatric high-grade glioma
Frank P. B. Dubois, Ofer Shapira, Noah F. Greenwald, Travis Zack, Jeremiah Wala, ..., David T. W. Jones, Mark W. Kieran, Keith L. Ligon, Rameen Beroukhim, Pratiti Bandopadhayay
Nature Cancer   ·   04 Jul 2022   ·   doi:10.1038/s43018-022-00403-z
Structural variations in cancer and the 3D genome
Structural variations in cancer and the 3D genome
Frank Dubois, Nikos Sidiropoulos, Joachim Weischenfeldt, Rameen Beroukhim
Nature Reviews Cancer   ·   28 Jun 2022   ·   doi:10.1038/s41568-022-00488-9
PPM1D mutations are oncogenic drivers of de novo diffuse midline glioma formation
PPM1D mutations are oncogenic drivers of de novo diffuse midline glioma formation
Prasidda Khadka, Zachary J. Reitman, Sophie Lu, Graham Buchan, Gabrielle Gionet, ..., Hasmik Keshishian, Keith L. Ligon, Steven A. Carr, Timothy N. Phoenix, Pratiti Bandopadhayay
Nature Communications   ·   01 Feb 2022   ·   doi:10.1038/s41467-022-28198-8

2020

Histone H3.3G34-Mutant Interneuron Progenitors Co-opt PDGFRA for Gliomagenesis
Histone H3.3G34-Mutant Interneuron Progenitors Co-opt PDGFRA for Gliomagenesis
Carol C.L. Chen, Shriya Deshmukh, Selin Jessa, Djihad Hadjadj, Véronique Lisi, ..., Dominik Sturm, David T.W. Jones, Paolo Salomoni, Claudia L. Kleinman, Nada Jabado
Cell   ·   01 Dec 2020   ·   doi:10.1016/j.cell.2020.11.012
MR Imaging Correlates for Molecular and Mutational Analyses in Children with Diffuse Intrinsic Pontine Glioma
MR Imaging Correlates for Molecular and Mutational Analyses in Children with Diffuse Intrinsic Pontine Glioma
C. Jaimes, S. Vajapeyam, D. Brown, P.-C. Kao, C. Ma, ..., K.L. Ligon, S. Chi, M.W. Kieran, K.D. Wright, T.Y. Poussaint
American Journal of Neuroradiology   ·   01 May 2020   ·   doi:10.3174/ajnr.A6546
Mechanisms and therapeutic implications of hypermutation in gliomas
Mechanisms and therapeutic implications of hypermutation in gliomas
Mehdi Touat, Yvonne Y. Li, Adam N. Boynton, Liam F. Spurr, J. Bryan Iorgulescu, ..., Ahmed Idbaih, Rameen Beroukhim, Pratiti Bandopadhayay, Franck Bielle, Keith L. Ligon
Nature   ·   15 Apr 2020   ·   doi:10.1038/s41586-020-2209-9

2019

Neuronal differentiation and cell-cycle programs mediate response to BET-bromodomain inhibition in MYC-driven medulloblastoma
Neuronal differentiation and cell-cycle programs mediate response to BET-bromodomain inhibition in MYC-driven medulloblastoma
Pratiti Bandopadhayay, Federica Piccioni, Ryan O’Rourke, Patricia Ho, Elizabeth M. Gonzalez, ..., Jacob D. Jaffe, David E. Root, Kimberly Stegmaier, Cory M. Johannessen, Rameen Beroukhim
Nature Communications   ·   03 Jun 2019   ·   doi:10.1038/s41467-019-10307-9

2018

Specific <sup>18</sup>F-FDHT Accumulation in Human Prostate Cancer Xenograft Murine Models Is Facilitated by Prebinding to Sex Hormone–Binding Globulin
Specific 18F-FDHT Accumulation in Human Prostate Cancer Xenograft Murine Models Is Facilitated by Prebinding to Sex Hormone–Binding Globulin
Benjamin M. Larimer, Frank Dubois, Emily Bloch, Sarah Nesti, Michael Placzek, Giorgia Zadra, Jacob M. Hooker, Massimo Loda, Umar Mahmood
Journal of Nuclear Medicine   ·   31 May 2018   ·   doi:10.2967/jnumed.118.208785