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Journal Articles

Abstract 2261: A scalable comparison of tumor immune atlases

Jing Yang, Qi Liu, Yu Shyr
Journal: Cancer Research
Cancer Res (2024) 84 (6_Supplement): 2261.
https://doi.org/10.1158/1538-7445.AM2024-2261
Published: 22 March 2024
View article titled, Abstract 2261: A scalable comparison of tumor immune atlases
Journal Articles

A Large-Scale Meta-Analysis Reveals Positive Feedback between Macrophages and T Cells That Sensitizes Tumors to Immunotherapy

Jing Yang, Qi Liu, Yu Shyr
Journal: Cancer Research
Cancer Res (2024) 84 (4): 626–638.
https://doi.org/10.1158/0008-5472.CAN-23-2006
Published: 15 February 2024
View article titled, A Large-Scale Meta-Analysis Reveals Positive Feedback between Macrophages and T Cells That Sensitizes Tumors to Immunotherapy
Open the PDF for A Large-Scale Meta-Analysis Reveals Positive Feedback between Macrophages and T Cells That Sensitizes Tumors to Immunotherapy in another window
Includes: Supplementary data
Journal Articles

Abstract CT145: Olaparib +/- atezolizumab in patients with BRCA-mutated (BRCAmt) locally advanced unresectable or metastatic (advanced) breast cancer: an open-label, multicenter, randomized phase II trial

Kristina A. Fanucci, Mary Jo Pilat, Derek Shyr, Yu Shyr, Scott A. Boerner, Diane Durecki, Anne Noonan, Vandana Abramson, Cesar Santa-Maria, Hyo Han, Rita Nanda, Elizabeth Claire Dees, Haeseong Park, Saundra Buys, Namrata Peswani, Helen Chew, Hadeel Assad, Gerburg Wulf, Angelique Richardson, Meghna S. Trivedi, Adam Brufsky, James Abbruzzese, Anosheh Afghahi, Elad Sharon, Kurt Schalper, Patricia LoRusso
Journal: Cancer Research
Cancer Res (2023) 83 (8_Supplement): CT145.
https://doi.org/10.1158/1538-7445.AM2023-CT145
Published: 14 April 2023
View article titled, Abstract CT145: Olaparib +/- atezolizumab in patients with BRCA-mutated (BRCAmt) locally advanced unresectable or metastatic (advanced) breast cancer: an open-label, multicenter, randomized phase II trial
Journal Articles

Abstract 798: SeroNet Pooling Project of immunocompromised populations

Elham Kazemain, Jane Figueiredo, Jacek Skarbinski, Russell McBride, Viviana Simon, Amy B. Karger, F. Eun-Hyung Lee, Fred R. Hirsch, Andrea Cox, Sabra Klein, Rong Fan, Stephanie Halene, David A. Zidar, James M. Crawford, Bharat Thyagarajan, Charles Gleason, Alex Mathson, Komal Srivastava, Puleng Moshele, Toby Amoss, Martin Runnstrom, Susanne Linderman, Ananda M. Rodilla, Philip C. Mack, Yu Shyr, Anna Yin, Patrick Shea, Jennifer VanOudenhove, Hinnah Siddiqui, Brigid M. Wilson, Eric P. Elkin, Crystal A. Hsiao, Yonah Ziemba, Cheryl B. Schleicher, Sharon Fox, Lawrence H. Kushi, Karen Reckamp, Akil Merchant, Noah Merin
Journal: Cancer Research
Cancer Res (2023) 83 (7_Supplement): 798.
https://doi.org/10.1158/1538-7445.AM2023-798
Published: 04 April 2023
View article titled, Abstract 798: SeroNet Pooling Project of immunocompromised populations
Journal Articles

Abstract CT170: A phase 1/2 study of olaparib in combination with ramucirumab in metastatic gastric and gastroesophageal junction adenocarcinoma (GEJ)

Michael Cecchini, Joseph Chao, Yu Shyr, James Cleary, Nataliya Uboha, May Cho, Anthony Shields, Shubham Pant, Laura Goff, Kristin Spencer, Edward Kim, Chih-Yuan Hsu, Stacey Stein, Jaykumar Thumar, Jeremy Kortmansky, John Kunstman, Patricia LoRusso, Percy Ivy, Jill Lacy
Journal: Cancer Research
Cancer Res (2022) 82 (12_Supplement): CT170.
https://doi.org/10.1158/1538-7445.AM2022-CT170
Published: 15 June 2022
View article titled, Abstract CT170: A phase 1/2 study of olaparib in combination with ramucirumab in metastatic gastric and gastroesophageal junction adenocarcinoma (GEJ)
Journal Articles

Abstract 5018: A comprehensive analysis of genomic determinants of response to immune checkpoint inhibitor-based immunotherapy

Jing Yang, Qi Liu, Yu Shyr
Journal: Cancer Research
Cancer Res (2022) 82 (12_Supplement): 5018.
https://doi.org/10.1158/1538-7445.AM2022-5018
Published: 15 June 2022
View article titled, Abstract 5018: A comprehensive analysis of genomic determinants of response to immune checkpoint inhibitor-based immunotherapy
Journal Articles

A Pan-Cancer Immunogenomic Atlas for Immune Checkpoint Blockade Immunotherapy

Jing Yang, Shilin Zhao, Jing Wang, Quanhu Sheng, Qi Liu, Yu Shyr
Journal: Cancer Research
Cancer Res (2022) 82 (4): 539–542.
https://doi.org/10.1158/0008-5472.CAN-21-2335
Published: 15 February 2022
View article titled, A Pan-Cancer Immunogenomic Atlas for Immune Checkpoint Blockade Immunotherapy
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Includes: Supplementary data
Journal Articles

Abstract 1332: Cancer-Immu portal: An open resource for exploring immunotherapy-related multidimensional cancer genomic profiles

Jing Yang, Qi Liu, Yu Shyr
Journal: Cancer Research
Cancer Res (2020) 80 (16_Supplement): 1332.
https://doi.org/10.1158/1538-7445.AM2020-1332
Published: 15 August 2020
View article titled, Abstract 1332: Cancer-Immu portal: An open resource for exploring immunotherapy-related multidimensional cancer genomic profiles
Journal Articles

Abstract CT171: Phase I/II study to evaluate the safety and preliminary activity of nivolumab in combination with vorolanib in patients with refractory thoracic tumors

Jennifer G. Whisenant, Katy Beckerman, Hossein Borghaei, Taofeek Owonikoko, Jyoti Patel, Yu Shyr, Kimberly Harrow, Chris Liang, Allison Holzhausen, Heather Wakelee, Leora Horn
Journal: Cancer Research
Cancer Res (2019) 79 (13_Supplement): CT171.
https://doi.org/10.1158/1538-7445.AM2019-CT171
Published: 01 July 2019
View article titled, Abstract CT171: Phase I/II study to evaluate the safety and preliminary activity of nivolumab in combination with vorolanib in patients with refractory thoracic tumors
Journal Articles

Abstract 1748: Organ-specific epigenetic reprogramming of leukemia cells: Clues to chemoresistance

Isabel Cunningham, Diane Hamele-Bena, Audrey Papp, Yan Guo, Antony B. Holmes, Yu Shyr, Rory A. Fisher
Journal: Cancer Research
Cancer Res (2017) 77 (13_Supplement): 1748.
https://doi.org/10.1158/1538-7445.AM2017-1748
Published: 01 July 2017
View article titled, Abstract 1748: Organ-specific epigenetic reprogramming of leukemia cells: Clues to chemoresistance
Journal Articles

Abstract 4375: Complex interactions between genomic and epigenomic alterations in esophageal adenocarcinomas

Dunfa Peng, Yan Guo, Heidi Chen, Shilin Zhao, Kay Washington, Tianling Hu, Yu Shyr, Wael El-Rafai
Journal: Cancer Research
Cancer Res (2017) 77 (13_Supplement): 4375.
https://doi.org/10.1158/1538-7445.AM2017-4375
Published: 01 July 2017
View article titled, Abstract 4375: Complex interactions between genomic and epigenomic alterations in esophageal adenocarcinomas
Journal Articles

RNA Sequencing Identifies Transcriptionally Viable Gene Fusions in Esophageal Adenocarcinomas

Andrew E. Blum, Srividya Venkitachalam, Yan Guo, Ann Marie Kieber-Emmons, Lakshmeswari Ravi, Apoorva K. Chandar, Prasad G. Iyer, Marcia I. Canto, Jean S. Wang, Nicholas J. Shaheen, Jill S. Barnholtz-Sloan, Sanford D. Markowitz, Joseph E. Willis, Yu Shyr, Amitabh Chak, Vinay Varadan, Kishore Guda
Journal: Cancer Research
Cancer Res (2016) 76 (19): 5628–5633.
https://doi.org/10.1158/0008-5472.CAN-16-0979
Published: 02 October 2016
View article titled, RNA Sequencing Identifies Transcriptionally Viable Gene Fusions in Esophageal Adenocarcinomas
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Includes: Supplementary data
Journal Articles

Diverse, Biologically Relevant, and Targetable Gene Rearrangements in Triple-Negative Breast Cancer and Other Malignancies

Timothy M. Shaver, Brian D. Lehmann, J. Scott Beeler, Chung-I Li, Zhu Li, Hailing Jin, Thomas P. Stricker, Yu Shyr, Jennifer A. Pietenpol
Journal: Cancer Research
Series: Author Choice
Cancer Res (2016) 76 (16): 4850–4860.
https://doi.org/10.1158/0008-5472.CAN-16-0058
Published: 14 August 2016
View article titled, Diverse, Biologically Relevant, and Targetable Gene Rearrangements in Triple-Negative Breast Cancer and Other Malignancies
Open the PDF for Diverse, Biologically Relevant, and Targetable Gene Rearrangements in Triple-Negative Breast Cancer and Other Malignancies in another window
Includes: Supplementary data
Journal Articles

Abstract 1937: In-depth genomic analysis reveals complex functional consequence of driver mutations in breast cancers

Yaomin Xu, Xingyi Guo, Shilin Zhao, Eric Torstenson, Todd Edwards, Yu Shyr
Journal: Cancer Research
Cancer Res (2015) 75 (15_Supplement): 1937.
https://doi.org/10.1158/1538-7445.AM2015-1937
Published: 01 August 2015
View article titled, Abstract 1937: In-depth genomic analysis reveals complex functional consequence of driver mutations in breast cancers
Journal Articles

Abstract B49: Smad4 suppresses Wnt signaling through downregulation of β-catenin

J. Joshua Smith, Tanner J. Freeman, Natasha G. Deane, Jinghuan Zi, Sabrina Poon, Steven Chen, Christian Kis, Ethan Lee, Punita Dhawan, Mary Kay Washington, Yu Shyr, R. Daniel Beauchamp
Journal: Cancer Research
Cancer Res (2009) 69 (23_Supplement): B49.
https://doi.org/10.1158/0008-5472.FBCR09-B49
Published: 28 October 2014
View article titled, Abstract B49: Smad4 suppresses Wnt signaling through downregulation of β-catenin
Journal Articles

Abstract 4781: Integrated epigenomic profiling reveals widespread demethylation in melanoma and reveals CSF-1 receptor as an aberrant regulator of malignant growth and invasion

Yongkai Mo, Orsolya Giricz, Caroline H. Hu, Kimberly B. Dahlman, Sanchari Bhattacharyya, Hoa Nguyen, Bernice Matusow, Tushar Bhagat, Rafe Shellooe, Elizabeth Burton, James Tsai, Chao Zhang, Gaston Habets, Yu Shyr, John Greally, Yiting Yu, Gideon E. Bollag, Richard Stanley, Jeffrey Trent, Paraic A. Kenny, Brian L. West, Jeffrey Sosman, Amit K. Verma
Journal: Cancer Research
Cancer Res (2014) 74 (19_Supplement): 4781.
https://doi.org/10.1158/1538-7445.AM2014-4781
Published: 01 October 2014
View article titled, Abstract 4781: Integrated epigenomic profiling reveals widespread demethylation in melanoma and reveals CSF-1 receptor as an aberrant regulator of malignant growth and invasion
Journal Articles

ALCAM/CD166 Is a TGF-β–Responsive Marker and Functional Regulator of Prostate Cancer Metastasis to Bone

Amanda G. Hansen, Shanna A. Arnold, Ming Jiang, Trenis D. Palmer, Tatiana Ketova, Alyssa Merkel, Michael Pickup, Susan Samaras, Yu Shyr, Harold L. Moses, Simon W. Hayward, Julie A. Sterling, Andries Zijlstra
Journal: Cancer Research
Cancer Res (2014) 74 (5): 1404–1415.
https://doi.org/10.1158/0008-5472.CAN-13-1296
Published: 02 March 2014
View article titled, ALCAM/CD166 Is a TGF-β–Responsive Marker and Functional Regulator of Prostate Cancer Metastasis to Bone
Open the PDF for ALCAM/CD166 Is a TGF-β–Responsive Marker and Functional Regulator of Prostate Cancer Metastasis to Bone in another window
Includes: Supplementary data
Journal Articles

Elevated ALCAM Shedding in Colorectal Cancer Correlates with Poor Patient Outcome

Amanda G. Hansen, Tanner J. Freeman, Shanna A. Arnold, Alina Starchenko, Celestial R. Jones-Paris, Michael A. Gilger, Mary K. Washington, Kang-Hsien Fan, Yu Shyr, Robert D. Beauchamp, Andries Zijlstra
Journal: Cancer Research
Cancer Res (2013) 73 (10): 2955–2964.
https://doi.org/10.1158/0008-5472.CAN-12-2052
Published: 12 May 2013
View article titled, Elevated ALCAM Shedding in Colorectal Cancer Correlates with Poor Patient Outcome
Open the PDF for Elevated ALCAM Shedding in Colorectal Cancer Correlates with Poor Patient Outcome in another window
Includes: Supplementary data
Journal Articles

Abstract 5216: Gene co-expression network analysis of small cell lung cancer (SCLC) identifies new subclasses and novel therapeutic targets including Src family kinase Fyn and Spleen Tyrosine Kinase Syk.

Akshata R. Udyavar, Megan D. Hoeksema, Jonathan Clark, Yong Zou, Ming Li, Chiu-Lan (Heidi) Chen, Rosana Eisenberg, Alexander Statnikov, Daniel C. Liebler, John Field, Yu Shyr, Lourdes Estrada, Vito Quaranta, Pierre P. Massion
Journal: Cancer Research
Cancer Res (2013) 73 (8_Supplement): 5216.
https://doi.org/10.1158/1538-7445.AM2013-5216
Published: 15 April 2013
View article titled, Abstract 5216: Gene co-expression network analysis of small cell lung cancer (SCLC) identifies new subclasses and novel therapeutic targets including Src family kinase Fyn and Spleen Tyrosine Kinase Syk.
Journal Articles

Abstract 3628: Benign disease prevalence after surgical lung resection varies geographically in the US Medicare population, implications for lung cancer screening.

Stephen A. Deppen, Sharon Phillips, Melissa McPheeters, Melinda C. Aldrich, Jeffery Blume, David F. Penson, Yu Shyr, Eric L. Grogan
Journal: Cancer Research
Cancer Res (2013) 73 (8_Supplement): 3628.
https://doi.org/10.1158/1538-7445.AM2013-3628
Published: 15 April 2013
View article titled, Abstract 3628: Benign disease prevalence after surgical lung resection varies geographically in the US Medicare population, implications for lung cancer screening.