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Journal Articles

Abstract 169: Tumor heterogeneity and differential pathway activation in melanoma: insights from spatial profiling of AXL and NGFR upregulated regions

Mark Woodnorth, Giuseppe Tarantino, Anne Zaremba, Tuulia Vallius, Florian Rambow, Lisa Zimmer, Antje Sucker, Elisabeth Livingstone, Eva Hadaschik, Roxanne Pelletier, Yingxiao Shi, Mariana Lopez, Samira Makhzami, Christine Lian, George Murphy, Genevieve Boland, Peter Sorger, Dirk Schadendorf, David Liu
Journal: Cancer Research
Cancer Res (2025) 85 (8_Supplement_1): 169.
https://doi.org/10.1158/1538-7445.AM2025-169
Published: 21 April 2025
View articletitled, Abstract 169: Tumor heterogeneity and differential pathway activation in melanoma: insights from spatial profiling of AXL and NGFR upregulated regions
Journal Articles

Abstract 642: Peripheral immune cells associated with toxicity to ipilimumab plus nivolumab checkpoint blockade in patients with metastatic melanoma

Jiajia Chen, Joanna Baginska, Giuseppe Tarantino, Kelly Burke, Elad Sharon, Anita Giobbie-Hurder, Jason L. Weirather, Michael Manos, Janice D. Russell, Ryan Brennick, Matthew Nazzaro, Emma Hathaway, Marta Holovatska, Claire Manuszak, Srinika Ranashinge, David Liu, F. Stephen Hodi
Journal: Cancer Research
Cancer Res (2025) 85 (8_Supplement_1): 642.
https://doi.org/10.1158/1538-7445.AM2025-642
Published: 21 April 2025
View articletitled, Abstract 642: Peripheral immune cells associated with toxicity to ipilimumab plus nivolumab checkpoint blockade in patients with metastatic melanoma
Journal Articles

Abstract 158: Spatial heterogeneity of tumor cell states in primary cutaneous melanoma

Tuulia Vallius, Yingxiao Shi, Edward Novikov, Ajit Nirmal Johnson, Roxanne Pelletier, Shishir Pant, Zoltan Maliga, David Liu, Guihong Wan, Yevgeniy Semenov, Christine Lian, George Murphy, Sandro Santagata, Peter Sorger
Journal: Cancer Research
Cancer Res (2025) 85 (8_Supplement_1): 158.
https://doi.org/10.1158/1538-7445.AM2025-158
Published: 21 April 2025
View articletitled, Abstract 158: Spatial heterogeneity of tumor cell states in primary cutaneous melanoma
Journal Articles

Abstract 4536: Dissecting tumor-immune microenvironment in response and resistance to immune checkpoint blockade in metastatic melanoma

Xinyu Cui, Giuseppe Tarantino, Yiwen He, Priyanka Solanky, Kathleen Pfaff, Aaron R. Thorner, Tyler J. Aprati, Boyang Zhang, Timothy Blosser, Emily Robitschek, Jiajia Chen, Junko Tsuji, Elliot Boblitt, Allison Frangieh, Hannah M. Faulkner, Marta Holovatska, Aleigha Lawless, Michael Manos, Karla Helvie, Tatyana Sharova, Dennie Frederick, James L. Fahey, Diego Villamarin, Sachi Krishna, Chanell Mangum, Ajit J. Nirmal, Domenic Abbondanza, Cai McCann, Bruce Johnson, Alex K. Shalek, Eliezer Van Allen, Xiaowei Zhuang, Ryan Sullivan, Barbara E. Engelhardt, Samouil L. Farhi, Scott Rodig, F. Stephen Hodi, Genevieve M. Boland, David Liu
Journal: Cancer Research
Cancer Res (2025) 85 (8_Supplement_1): 4536.
https://doi.org/10.1158/1538-7445.AM2025-4536
Published: 21 April 2025
View articletitled, Abstract 4536: Dissecting tumor-immune microenvironment in response and resistance to immune checkpoint blockade in metastatic melanoma
Journal Articles

Abstract 6256: Dissecting tumor-intrinsic programs and immune dynamics driving response to immunotherapy in metastatic melanoma through non-negative matrix factorization decomposition

Priyanka Solanky, Giuseppe Tarantino, Yiwen He, Xinyu Cui, Kathleen Pfaff, Aaron R. Thorner, Tyler J. Aprati, Boyang Zhang, Timothy Blosser, Jiajia Chen, Junko Tsuji, Elliot Boblitt, Allison Frangieh, Hannah Mae Faulkner, Marta M. Holovatska, Aleigha R. Lawless, Michael Manos, Emily Robitschek, Karla Helvie, Tatyana Sharova, Dennie Frederick, James Liam Fahey, Diego Villamarin, Sachi Krishna, Chanell Mangum, Ajit J. Nirmal, Domenic Abbondanza, Cai McCann, Bruce Johnson, Alex Shalek, Eliezer Van Allen, Xiaowei Zhuang, Ryan J. Sullivan, Barbara Engelhardt, Sami Farhi, Scott J. Rodig, Stephen Hodi, Genevieve Boland, David Liu
Journal: Cancer Research
Cancer Res (2025) 85 (8_Supplement_1): 6256.
https://doi.org/10.1158/1538-7445.AM2025-6256
Published: 21 April 2025
View articletitled, Abstract 6256: Dissecting tumor-intrinsic programs and immune dynamics driving response to immunotherapy in metastatic melanoma through non-negative matrix factorization decomposition
Journal Articles

Abstract 2432: Automated detection of genome-doubled tumors in H&E whole-slide images: towards a novel visual biomarker for predicting overall survival

Bojan Karlaš, Marc Glettig, Giuseppe Tarantino, Jiajia Chen, Guihong Wan, Tyler J. Aprati, Haitham A. Elmarakeby, Christine G. Lian, Yevgeniy R. Semenov, David Liu
Journal: Cancer Research
Cancer Res (2025) 85 (8_Supplement_1): 2432.
https://doi.org/10.1158/1538-7445.AM2025-2432
Published: 21 April 2025
View articletitled, Abstract 2432: Automated detection of genome-doubled tumors in H&E whole-slide images: towards a novel visual biomarker for predicting overall survival
Journal Articles

Abstract 5014: Integrative molecular and spatial analysis to reveal tumor intrinsic and extrinsic drivers of immunotherapy response in mucosal melanoma

Yingxiao Shi, Tuulia Vallius, Aikaterini Dedeilia, Roxanne Pelletier, Jia-Ren Lin, Mariana Lopez Leon, Christine Lian, Shishir Pant, Giuseppe Tarantino, Annette Wang, Jiajia Chen, Elizabeth I. Buchbinder, Peter K. Sorger, David Liu, Genevieve M. Boland
Journal: Cancer Research
Cancer Res (2025) 85 (8_Supplement_1): 5014.
https://doi.org/10.1158/1538-7445.AM2025-5014
Published: 21 April 2025
View articletitled, Abstract 5014: Integrative molecular and spatial analysis to reveal tumor intrinsic and extrinsic drivers of immunotherapy response in mucosal melanoma
Journal Articles

Abstract B034: Overcoming resistance to immunotherapy by targeting CD38 in human tumor explants

Or-Yam Revach, Angelina Cicerchia, Ofir Shorer, Boryana Petrova, Seth Anderson, Joshua Park, Chen Lee, Arnav Mehta, Samuel Wright, Niamh McNamee, Aya Tal-Mason, Giulia Cattaneo, Payal Tiwari, Hongyan Xie, Johanna Sweere, Li-Chun Cheng, Natalia Sigal, Elizabeth Enrico, Marisa Miljkovic, Shane Evans, Ngan Nguyen, Mark Whidden, Ramji Srinivasan, Matthew Spitzer, Yi Sun, Tatyana Sharova, Aleigha Lawless, William Michaud, Martin Rasmussen, Jacy Fang, Claire Palin, Feng Chen, Xinhui Wang, Cristina Ferrone, Donald Lawrence, Ryan Sullivan, David Liu, Uma Sachdeva, Debattama Sen, Keith Flaherty, Robert Manguso, Lloyd Bod, Manolis Kellis, Genevieve Boland, Keren Yizhak, Jiekun Yang, Naama Kanarek, Moshe Sade-Feldman, Nir Hacohen, Russell Jenkins
Journal: Cancer Research
Cancer Res (2025) 85 (5_Supplement): B034.
https://doi.org/10.1158/1538-7445.GENFUNC25-B034
Published: 11 March 2025
View articletitled, Abstract B034: Overcoming resistance to immunotherapy by targeting CD38 in human tumor explants
Journal Articles

Abstract 2750: Leveraging machine-learning approaches to dissect drivers of clinical metastatic dynamics in lung adenocarcinoma

Tyler Aprati, Michael Manos, Giuseppe Tarantino, Marc Glettig, Maryclare Griffin, Alexander Gusev, Kenneth Kehl, David Liu
Journal: Cancer Research
Cancer Res (2024) 84 (6_Supplement): 2750.
https://doi.org/10.1158/1538-7445.AM2024-2750
Published: 22 March 2024
View articletitled, Abstract 2750: Leveraging machine-learning approaches to dissect drivers of clinical metastatic dynamics in lung adenocarcinoma
Journal Articles

Abstract 6397: Immune profiling for improving responsiveness to ipilimumab plus nivolumab checkpoint blockade treatment in patients with metastatic melanoma

Joanna Baginska, Jiajia Chen, Giuseppe Tarantino, Anita Giobbie-Hurder, Jason L. Weirather, Mariano Severgnini, Michael Manos, Kelly Burke, Janice D. Russell, Martha Brainard, Elizabeth Gabriel, Ryan Brennick, Matthew Nazzaro, Emma Hathaway, Marta Holovatska, Claire Manuszak, Srinika Ranashinge, David Liu, F. Stephen Hodi
Journal: Cancer Research
Cancer Res (2024) 84 (6_Supplement): 6397.
https://doi.org/10.1158/1538-7445.AM2024-6397
Published: 22 March 2024
View articletitled, Abstract 6397: Immune profiling for improving responsiveness to ipilimumab plus nivolumab checkpoint blockade treatment in patients with metastatic melanoma
Journal Articles

Abstract 2486: Dissecting tumor-immune interaction in response and resistance to immune checkpoint blockade in metastatic melanoma

Giuseppe Tarantino, Yiwen He, Priyanka Solanky, Aaron Thorner, Tyler Aprati, Ryan Sullivan, Emily Robitschek, Timothy Blosser, Xiaowei Zhuang, Xiaowei Zhuang, Elliot Boblitt, Allison Frangieh, Marta Holovatska, Aleigha Lawless, Michael Manos, Kathleen Pfaff, Karla Helvie, Tatyana Sharova, Dennie Frederick, James Liam Fahey, Diego Villamarin, Sami Farhi, Scott Rodig, Bruce Johnson, Alex K. Shalek, Eliezer Van Allen, Stephen Hodi, Genevieve M. Boland, David Liu
Journal: Cancer Research
Cancer Res (2024) 84 (6_Supplement): 2486.
https://doi.org/10.1158/1538-7445.AM2024-2486
Published: 22 March 2024
View articletitled, Abstract 2486: Dissecting tumor-immune interaction in response and resistance to immune checkpoint blockade in metastatic melanoma
Journal Articles

Abstract 5186: Spatial single-cell deconvolution of the bone marrow microenvironment to define predictive biomarker for response to immunotherapy in patients treated with a check point inhibitor in smoldering multiple myeloma, phase II trial of nivolumab in combination with lenalidomide and low dose dexamethasone

Yoshinobu Konishi, Giuseppe Tarantino, Yiwen He, Romanos Sklavenitis-Pistofidis, Sujal I. Shah, Katherine Towle, Christian J. Cea-Curry, Oksana Zavidij, Ruben D. Carrasco, Scott J. Rodig, Jon C. Aster, David Liu, Gad Getz, Irene M. Ghobrial
Journal: Cancer Research
Cancer Res (2024) 84 (6_Supplement): 5186.
https://doi.org/10.1158/1538-7445.AM2024-5186
Published: 22 March 2024
View articletitled, Abstract 5186: Spatial single-cell deconvolution of the bone marrow microenvironment to define predictive biomarker for response to immunotherapy in patients treated with a check point inhibitor in smoldering multiple myeloma, phase II trial of nivolumab in combination with lenalidomide and low dose dexamethasone
Journal Articles

Abstract 910: Clinical inference and biological dissection of tumor ploidy and heterogeneity in cutaneous melanoma for immunotherapy response using deep learning

Marc Glettig, Giuseppe Tarantino, Tyler Aprati, Haitham Elmarakeby, David Liu
Journal: Cancer Research
Cancer Res (2024) 84 (6_Supplement): 910.
https://doi.org/10.1158/1538-7445.AM2024-910
Published: 22 March 2024
View articletitled, Abstract 910: Clinical inference and biological dissection of tumor ploidy and heterogeneity in cutaneous melanoma for immunotherapy response using deep learning
Journal Articles

Abstract 3249: Circulating cytokine associations with clinical outcomes in melanoma patients treated with checkpoint inhibitors

Jiajia Chen, Giuseppe Tarantino, Mariano Severgnini, Joanna Baginska, Anita Giobbie-Hurder, Michael Manos, Janice D. Russell, Jason L. Weirather, Kathleen Pfaff, Amy Y. Huang, Scott J. Rodig, Srinika Ranashinge, David Liu, F.Stephen Hodi
Journal: Cancer Research
Cancer Res (2023) 83 (7_Supplement): 3249.
https://doi.org/10.1158/1538-7445.AM2023-3249
Published: 04 April 2023
View articletitled, Abstract 3249: Circulating cytokine associations with clinical outcomes in melanoma patients treated with checkpoint inhibitors
Journal Articles

Abstract 1706: A non-canonical MiT/TFE-dependent NRF2 program is a druggable vulnerability in multiple cancer types

Xinbo Luo, Bart Lutterbach, Priya Pancholi, Yeon Sook Choi, Xiao Liu, Phillip Munson, Saqib Faisal, David A. Whipple, Robert A. Smith, Warren S. Weiner, David K. Johnson, Myriam Boukhali, Nicole S. Persky, Matthew G. Rees, Shunsuke Kitajima, David Barbie, Anuradha Roy, Michael Baltezor, Lian Rajewski, William McGuinness, John Haslam, Ananthan Sadagopan, Charles H. Yoon, Cory M. Johannessen, Christine G. Lian, Jason L. Hornick, Srinivas R. Viswanathan, David Liu, Vicki Nienaber, Wilhelm Haas, Frank J. Schoenen, David E. Fisher, Rizwan Haq
Journal: Cancer Research
Cancer Res (2023) 83 (7_Supplement): 1706.
https://doi.org/10.1158/1538-7445.AM2023-1706
Published: 04 April 2023
View articletitled, Abstract 1706: A non-canonical MiT/TFE-dependent NRF2 program is a druggable vulnerability in multiple cancer types
Journal Articles

Abstract 1120: Dissecting tumor cell programs through group biology estimation in clinical single-cell transcriptomics

Shreya Johri, Kevin Bi, Breanna M. Titchen, Jingxin Fu, Jake Conway, Jett Crowdis, Natalie I. Volkes, Zenghua Fan, Lawrence Fong, Jihye Park, David Liu, Meng Xiao He, Eliezer M. Van Allen
Journal: Cancer Research
Cancer Res (2023) 83 (7_Supplement): 1120.
https://doi.org/10.1158/1538-7445.AM2023-1120
Published: 04 April 2023
View articletitled, Abstract 1120: Dissecting tumor cell programs through group biology estimation in clinical single-cell transcriptomics
Journal Articles

Abstract 6430: Single-cell transcriptomic and epigenomic landscapes of innate and adaptive immune cells in metastatic melanoma treated with immunotherapy

Jiekun Yang, Doris Fu, Kyriakitsa Galani, Li-Lun Ho, Emily J. Robitschek, Dennie T. Frederick, Sandeep K. Yadav, Wentao Deng, Anand K. Singh, Kelly P. Burke, Cassia Wang, Tatyana Sharova, David Liu, Kunal Rai, Genevieve M. Boland, Manolis Kellis
Journal: Cancer Research
Cancer Res (2023) 83 (7_Supplement): 6430.
https://doi.org/10.1158/1538-7445.AM2023-6430
Published: 04 April 2023
View articletitled, Abstract 6430: Single-cell transcriptomic and epigenomic landscapes of innate and adaptive immune cells in metastatic melanoma treated with immunotherapy
Journal Articles

Abstract 3271: Multiomic meta-analysis of differential response to PD-1 and CTLA-4 blockade in metastatic melanoma

Amy Y. Huang, Natalie Vokes, Cora Ricker, Tyler Aprati, Emily Robitschek, Jiekun Yang, Li-Lun Ho, Kyriakitsa Galani, Kelly P. Burke, Giuseppe Tarantino, Jiajia Chen, Arlene H. Sharpe, Eliezer M. Van Allen, Manolis Kellis, Genevieve M. Boland, David Liu
Journal: Cancer Research
Cancer Res (2023) 83 (7_Supplement): 3271.
https://doi.org/10.1158/1538-7445.AM2023-3271
Published: 04 April 2023
View articletitled, Abstract 3271: Multiomic meta-analysis of differential response to PD-1 and CTLA-4 blockade in metastatic melanoma
Journal Articles

Abstract 4010: Inhibition of PERK by HC-5404 sensitizes clear cell renal cell carcinoma tumor models to anti-angiogenic tyrosine kinase inhibitors

Michael E. Stokes, Veronica Calvo, Crissy Dudgeon, Sho Fujisawa, Sharon Huang, Leyi Shen, Nupur Ballal, Joe McGinley, David Liu, Mark J. Mulvihill, Alan C. Rigby, Nandita Bose, Eric S. Lightcap, David Surguladze
Journal: Cancer Research
Cancer Res (2023) 83 (7_Supplement): 4010.
https://doi.org/10.1158/1538-7445.AM2023-4010
Published: 04 April 2023
View articletitled, Abstract 4010: Inhibition of PERK by HC-5404 sensitizes clear cell renal cell carcinoma tumor models to anti-angiogenic tyrosine kinase inhibitors
Journal Articles

Abstract 965: Genomic heterogeneity and ploidy identify patients with intrinsic resistance to PD-1 blockade in metastatic melanoma

Giuseppe Tarantino, Cora A. Ricker, Annette Wang, Will Ge, Amy Y. Huang, Shariq Madha, Jiajia Chen, Yingxiao Shi, Dennie T. Frederick, Samuel Freeman, Marta M. Holovatska, Michael P. Manos, Lisa Zimmer, Alexander Rösch, Anne Zaremba, Brendan Reardon, Jihye Park, Haitham Elmarakeby, Bastian Schilling, Anita Giobbie-Hurder, Natalie Vokes, Elizabeth I. Buchbinder, Keith Flaherty, Rizwan Haq, Catherine Wu, Genevieve Boland, F. Stephen Hodi, Eliezer Van Allen, Dirk Schadendorf, David Liu
Journal: Cancer Research
Cancer Res (2023) 83 (7_Supplement): 965.
https://doi.org/10.1158/1538-7445.AM2023-965
Published: 04 April 2023
View articletitled, Abstract 965: Genomic heterogeneity and ploidy identify patients with intrinsic resistance to PD-1 blockade in metastatic melanoma