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Journal Articles

Abstract 2476: Prediction of clinically relevant biomarker protein levels from histopathology images for breast cancer subtyping

Saugato Rahman Dhruba, Danh-Tai Hoang, Eldad D. Shulman, Ranjan K. Barman, Sanna Madan, Sanju Sinha, Kenneth Aldape, Eytan Ruppin

Cancer Res (2025) 85 (8_Supplement_1): 2476.

https://doi.org/10.1158/1538-7445.AM2025-2476

Published: 21 April 2025

View articletitled, Abstract 2476: Prediction of clinically relevant biomarker protein levels from histopathology images for breast cancer subtyping

Journal Articles

Abstract 2452: Path2Omics: An AI model integrating frozen slides to enhance transcriptomic predictions from tumor pathology images

Danh-Tai Hoang, Eldad D. Shulman, Saugato Rahman Dhruba, Ranjan Barman, H. Lalchungnunga, Omkar Singh, MacLean P. Nasrallah, Eric A. Stone, Kenneth Aldape, Eytan Ruppin

Cancer Res (2025) 85 (8_Supplement_1): 2452.

https://doi.org/10.1158/1538-7445.AM2025-2452

Published: 21 April 2025

View articletitled, Abstract 2452: Path2Omics: An AI model integrating frozen slides to enhance transcriptomic predictions from tumor pathology images

Journal Articles

Abstract 6353: Path2Space: An AI approach for cancer biomarker discovery via histopathology inferred spatial transcriptomics

Eldad D. Shulman, Emma M. Campagnolo, Roshan Lodha, Amos Stemmer, Thomas Cantore, Beibei Ru, Andrew Wang, Tom Hu, Maclean Nasrallah, Danh-Tai Hoang, Kenneth Aldape, Eytan Ruppin

Cancer Res (2025) 85 (8_Supplement_1): 6353.

https://doi.org/10.1158/1538-7445.AM2025-6353

Published: 21 April 2025

View articletitled, Abstract 6353: Path2Space: An AI approach for cancer biomarker discovery via histopathology inferred spatial transcriptomics

Journal Articles

Abstract 4591: Development and validation of a molecular classifier of meningiomas

Cancer Res (2025) 85 (8_Supplement_1): 4591.

https://doi.org/10.1158/1538-7445.AM2025-4591

Published: 21 April 2025

View articletitled, Abstract 4591: Development and validation of a molecular classifier of meningiomas

Journal Articles

Abstract 4592: TERT expression predicts progression-free survival in meningiomas

Cancer Res (2025) 85 (8_Supplement_1): 4592.

https://doi.org/10.1158/1538-7445.AM2025-4592

Published: 21 April 2025

View articletitled, Abstract 4592: TERT expression predicts progression-free survival in meningiomas

Journal Articles

Abstract 6279: Identification of novel secreted proteins modulating immunotherapy efficacy through spatial transcriptomics models

Beibei Ru, Lanqi Gong, Emily Yang, Kenneth Aldape, Lalage Wakefield, Peng Jiang

Cancer Res (2025) 85 (8_Supplement_1): 6279.

https://doi.org/10.1158/1538-7445.AM2025-6279

Published: 21 April 2025

View articletitled, Abstract 6279: Identification of novel secreted proteins modulating immunotherapy efficacy through spatial transcriptomics models

Journal Articles

Abstract B008: Machine-learning modelling of lung cancer metastasis to the brain using alterations in DNA methylation

Jeffrey A Zuccato, Yasin Mamatjan, Farshad Nassiri, Andrew Ajisebutu, Jeffrey Liu, Ammara Muazzam, Olivia Singh, Wen Zhang, Mathew Voisin, Suganth Suppiah, Olli Saarela, Ming Tsao, Thomas Kislinger, Kenneth Aldape, Michael Moran, Vikas Patil, Gelareh Zadeh

Cancer Res (2025) 85 (3_Supplement): B008.

https://doi.org/10.1158/1538-7445.DNAMETHYLATION-B008

Published: 01 February 2025

View articletitled, Abstract B008: Machine-learning modelling of lung cancer metastasis to the brain using alterations in DNA methylation

Journal Articles

Abstract 2346: Meningioma molecular classification predict response to surgical resection and adjuvant radiotherapy: An integrated clinicomolecular analysis

Cancer Res (2024) 84 (6_Supplement): 2346.

https://doi.org/10.1158/1538-7445.AM2024-2346

Published: 22 March 2024

View articletitled, Abstract 2346: Meningioma molecular classification predict response to surgical resection and adjuvant radiotherapy: An integrated clinicomolecular analysis

Journal Articles

Abstract 886: Integrated deep learning model for predicting DNA methylation and tumor types from histopathology in central nervous system tumors

Eldad David Shulman, Danh-Tai Hoang, Rust Turakulov, Zied Abdullaev, Omkar Singh, Emma M. Campagnolo, Eric A. Stone, MacLean P. Nasrallah, Eytan Ruppin, Kenneth Aldape

Cancer Res (2024) 84 (6_Supplement): 886.

https://doi.org/10.1158/1538-7445.AM2024-886

Published: 22 March 2024

View articletitled, Abstract 886: Integrated deep learning model for predicting DNA methylation and tumor types from histopathology in central nervous system tumors

Journal Articles

Abstract 3955: A proteogenomic study of high-grade glioma among adolescents and young adults

Cancer Res (2024) 84 (6_Supplement): 3955.

https://doi.org/10.1158/1538-7445.AM2024-3955

Published: 22 March 2024

View articletitled, Abstract 3955: A proteogenomic study of high-grade glioma among adolescents and young adults

Journal Articles

The Epigenetic Evolution of Glioma Is Determined by the IDH1 Mutation Status and Treatment Regimen

Tathiane M. Malta, Thais S. Sabedot, Natalia S. Morosini, Indrani Datta, Luciano Garofano, Wies Vallentgoed, Frederick S. Varn, Kenneth Aldape, Fulvio D'Angelo, Spyridon Bakas, Jill S. Barnholtz-Sloan, Hui K. Gan, Mohammad Hasanain, Ann-Christin Hau, Kevin C. Johnson, Simona Cazacu, Ana C. deCarvalho, Mustafa Khasraw, Emre Kocakavuk, Mathilde C.M. Kouwenhoven, Simona Migliozzi, Simone P. Niclou, Johanna M. Niers, D. Ryan Ormond, Sun Ha Paek, Guido Reifenberger, Peter A. Sillevis Smitt, Marion Smits, Lucy F. Stead, Martin J. van den Bent, Erwin G. Van Meir, Annemiek Walenkamp, Tobias Weiss, Michael Weller, Bart A. Westerman, Bauke Ylstra, Pieter Wesseling, Anna Lasorella, Pim J. French, Laila M. Poisson, Consortium The GLASS, Adelheid Woehrer, Allison K Lowman, Ana C deCarvalho, Ana Valeria Castro, Andrea Transou, Andrew R Brodbelt, Ann-Christin Hau, Anna Lasorella, Anna Golebiewska, Annemiek Walenkamp, Annette M Molinaro, Antonio Iavarone, Azzam Ismail, Bart A Westerman, Bauke Ylstra, Christoph Bock, D. Ryan Ormond, Daniel J Brat, Emre Kocakavuk, Erwin G Van Meir, Floris P Barthel, Frederick S Varn, Fulvio D'Angelo, Gaetano Finocchiaro, Ganesh Rao, Gelareh Zadeh, Guido Reifenberger, Ho Keu ngNg, Hoon Kim, Houtan Noushmehr, Hrvoje Miletic, Hui K Gan, Indrani Datta, Jack Rock, James M Snyder, Jason T Huse, Jennifer M Connelly, Jill S Barnholtz-Sloan, Johanna M Niers, John F deGroot, Kadir C Akdemir, Kasthuri S Kannan, Keith L Ligon, Kenneth Aldape, Ketan R Bulsara, Kevin C Johnson, Kristin D Alfaro, Laila M Poisson, Luciano Garofano, Lucy F Stead, MacLean P Nasrallah, Marion Smits, Martin J van den Bent, Mathilde CM Kouwenhoven, Michael Weller, Mohammad Hasanain, Mustafa Khasraw, Peter V Gould, Peter A Sillevis Smitt, Peter S LaViolette, Philip D Tatman, Pieter Wesseling, Pim J French, Rameen Beroukhim, Roel G.W. Verhaak, Simona Migliozzi, Simone P Niclou, Spyridon Bakas, Steven Kalkanis, Sun Ha Paek, Susan C Short, Tabatabai Ghazaleh, Tathiane M Malta, Thais S Sabedot, Tobias Weiss, Tobias Walbert, Ujjwal Baid, Wies Vallentgoed, W. K. Alfred Yung, Roel G.W. Verhaak, Antonio Iavarone, Houtan Noushmehr

Cancer Res (2024) 84 (5): 741–756.

https://doi.org/10.1158/0008-5472.CAN-23-2093

Published: 04 March 2024

View articletitled, The Epigenetic Evolution of Glioma Is Determined by the IDH1 Mutation Status and Treatment Regimen

Includes: Supplementary data

Journal Articles

Abstract LB151: Exploring the tumor microenvironment in a spatial context with SpaCET

Beibei Ru, Jinlin Huang, Yu Zhang, Kenneth Aldape, Peng Jiang

Cancer Res (2023) 83 (8_Supplement): LB151.

https://doi.org/10.1158/1538-7445.AM2023-LB151

Published: 14 April 2023

View articletitled, Abstract LB151: Exploring the tumor microenvironment in a spatial context with SpaCET

Journal Articles

Abstract 3523: A systematic comparison of molecular features shared by H3K27-altered diffuse midline gliomas and posterior fossa A ependymomas

Matthew Pun, Drew Pratt, Patricia R. Nano, Piyush K. Joshi, Li Jiang, Bernhard Englinger, Arvind Rao, Marcin Cieslik, Arul M. Chinnaiyan, Kenneth Aldape, Stefan Pfister, Mariella G. Filbin, Aparna Bhaduri, Sriram Venneti

Cancer Res (2023) 83 (7_Supplement): 3523.

https://doi.org/10.1158/1538-7445.AM2023-3523

Published: 04 April 2023

View articletitled, Abstract 3523: A systematic comparison of molecular features shared by H3K27-altered diffuse midline gliomas and posterior fossa A ependymomas

Journal Articles

Abstract 4512: My Pediatric and Adult Rare Tumor Network (MyPART): integrating longitudinal, clinical, molecular, and patient-reported outcomes for rare tumors

Shadin Ahmed, Margarita Raygada, Robin Lockridge, Mary Frances Wedekind Malone, Jaydira Del Rivero, John W. Glod, Barbara J. Thomas, Donna Bernstein, Markku M. Miettinen, Liqiang Xi, Jung Kim, Manoj Tygagi, Mark Raffeld, Kenneth Aldape, Ashkan A. Malayeri, Abby B. Sandler, Brigitte C. Widemann, Karlyne M. Reilly

Cancer Res (2023) 83 (7_Supplement): 4512.

https://doi.org/10.1158/1538-7445.AM2023-4512

Published: 04 April 2023

View articletitled, Abstract 4512: My Pediatric and Adult Rare Tumor Network (MyPART): integrating longitudinal, clinical, molecular, and patient-reported outcomes for rare tumors

Journal Articles

Abstract 957: Prediction of patient response to targeted and immunotherapies from the tumor transcriptome in a wide set of indications and clinical trials

Cancer Res (2023) 83 (7_Supplement): 957.

https://doi.org/10.1158/1538-7445.AM2023-957

Published: 04 April 2023

View articletitled, Abstract 957: Prediction of patient response to targeted and immunotherapies from the tumor transcriptome in a wide set of indications and clinical trials

Journal Articles

Abstract 127: Single-cell methylation sequencing data reveals succinct metastatic migration histories and tumor progression models

Xuan C. Li, Yuelin Liu, Farid Rashidi Mehrabadi, Alejandro A. Schäffer, Drew Pratt, David R. Crawford, Salem Malikić, Erin K. Molloy, Vishaka Gopalan, Stephen M. Mount, Eytan Ruppin, Kenneth Aldape, S. Cenk Sahinalp

Cancer Res (2023) 83 (7_Supplement): 127.

https://doi.org/10.1158/1538-7445.AM2023-127

Published: 04 April 2023

View articletitled, Abstract 127: Single-cell methylation sequencing data reveals succinct metastatic migration histories and tumor progression models

Journal Articles

Abstract 4355: Prediction of cancer treatment response from histopathology images for a broad set of treatments and indications

Danh-Tai Hoang, Gal Dinstag, Leandro C. Hermida, Doreen S. Ben-Zvi, Efrat Elis, Katherine Caley, Sanju Sinha, Neelam Sinha, Christopher H. Dampier, Tuvik Beker, Kenneth Aldape, Ranit Aharonov, Eric A. Stone, Eytan Ruppin

Cancer Res (2023) 83 (7_Supplement): 4355.

https://doi.org/10.1158/1538-7445.AM2023-4355

Published: 04 April 2023

View articletitled, Abstract 4355: Prediction of cancer treatment response from histopathology images for a broad set of treatments and indications

Journal Articles

Abstract 2168: Longitudinal analysis of diffuse glioma reveals cell state dynamics at recurrence associated with changes in genetics and the microenvironment

Cancer Res (2022) 82 (12_Supplement): 2168.

https://doi.org/10.1158/1538-7445.AM2022-2168

Published: 15 June 2022

View articletitled, Abstract 2168: Longitudinal analysis of diffuse glioma reveals cell state dynamics at recurrence associated with changes in genetics and the microenvironment

Journal Articles

Immune Determinants of the Association between Tumor Mutational Burden and Immunotherapy Response across Cancer Types

Neelam Sinha, Sanju Sinha, Cristina Valero, Alejandro A. Schäffer, Kenneth Aldape, Kevin Litchfield, Timothy A. Chan, Luc G.T. Morris, Eytan Ruppin

Cancer Res (2022) 82 (11): 2076–2083.

https://doi.org/10.1158/0008-5472.CAN-21-2542

Published: 06 June 2022

View articletitled, Immune Determinants of the Association between Tumor Mutational Burden and Immunotherapy Response across Cancer Types

Includes: Supplementary data

Journal Articles

Abstract 29: The recently approved high-TMB criteria may introduce a sex bias in response to PD1 inhibitors

Neelam Sinha, Sanju Sinha, Kuoyuan Cheng, Sanna Madan, Alejandro Schaffer, Kenneth Aldape, Ayelet Erez, Brid M. Ryan, Eytan Ruppin

Cancer Res (2021) 81 (13_Supplement): 29.

https://doi.org/10.1158/1538-7445.AM2021-29

Published: 01 July 2021

View articletitled, Abstract 29: The recently approved high-TMB criteria may introduce a sex bias in response to PD1 inhibitors

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Abstract 2476: Prediction of clinically relevant biomarker protein levels from histopathology images for breast cancer subtyping

Abstract 2452: Path2Omics: An AI model integrating frozen slides to enhance transcriptomic predictions from tumor pathology images

Abstract 6353: Path2Space: An AI approach for cancer biomarker discovery via histopathology inferred spatial transcriptomics

Abstract 4591: Development and validation of a molecular classifier of meningiomas

Abstract 4592: TERT expression predicts progression-free survival in meningiomas

Abstract 6279: Identification of novel secreted proteins modulating immunotherapy efficacy through spatial transcriptomics models

Abstract B008: Machine-learning modelling of lung cancer metastasis to the brain using alterations in DNA methylation

Abstract 2346: Meningioma molecular classification predict response to surgical resection and adjuvant radiotherapy: An integrated clinicomolecular analysis

Abstract 886: Integrated deep learning model for predicting DNA methylation and tumor types from histopathology in central nervous system tumors

Abstract 3955: A proteogenomic study of high-grade glioma among adolescents and young adults

The Epigenetic Evolution of Glioma Is Determined by the IDH1 Mutation Status and Treatment Regimen

Abstract LB151: Exploring the tumor microenvironment in a spatial context with SpaCET

Abstract 3523: A systematic comparison of molecular features shared by H3K27-altered diffuse midline gliomas and posterior fossa A ependymomas

Abstract 4512: My Pediatric and Adult Rare Tumor Network (MyPART): integrating longitudinal, clinical, molecular, and patient-reported outcomes for rare tumors

Abstract 957: Prediction of patient response to targeted and immunotherapies from the tumor transcriptome in a wide set of indications and clinical trials

Abstract 127: Single-cell methylation sequencing data reveals succinct metastatic migration histories and tumor progression models

Abstract 4355: Prediction of cancer treatment response from histopathology images for a broad set of treatments and indications

Abstract 2168: Longitudinal analysis of diffuse glioma reveals cell state dynamics at recurrence associated with changes in genetics and the microenvironment

Immune Determinants of the Association between Tumor Mutational Burden and Immunotherapy Response across Cancer Types

Abstract 29: The recently approved high-TMB criteria may introduce a sex bias in response to PD1 inhibitors

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