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Journal Articles

Multi-omics Analysis of a Fecal Microbiota Transplantation Trial Identifies Novel Aspects of Acute GVHD Pathogenesis

Armin Rashidi, Maryam Ebadi, Tauseef U. Rehman, Heba Elhusseini, David Kazadi, Hossam Halaweish, Mohammad H. Khan, Andrea Hoeschen, Qing Cao, Xianghua Luo, Amanda J. Kabage, Sharon Lopez, Sivapriya Ramamoorthy, Shernan G. Holtan, Daniel J. Weisdorf, Alexander Khoruts, Christopher Staley
Journal: Cancer Research Communications
Cancer Research Communications (2024) 4 (6): 1454–1466.
https://doi.org/10.1158/2767-9764.CRC-24-0138
Published: 10 June 2024
View article titled, Multi-omics Analysis of a Fecal Microbiota Transplantation Trial Identifies Novel Aspects of Acute GVHD Pathogenesis
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Includes: Supplementary data
Journal Articles

Pan-Cancer Interrogation of B7-H3 (CD276) as an Actionable Therapeutic Target Across Human Malignancies

Carly D. Miller, John R. Lozada, Nicholas A. Zorko, Andrew Elliott, Allison Makovec, Milan Radovich, Elisabeth I. Heath, Neeraj Agarwal, Rana R. Mckay, Rohan Garje, Bruno R. Bastos, Dave S.B. Hoon, Jacob J. Orme, Oliver Sartor, Ari VanderWalde, Chadi Nabhan, George Sledge, Eugene Shenderov, Scott M. Dehm, Emil Lou, Jeffrey S. Miller, Justin H. Hwang, Emmanuel S. Antonarakis
Journal: Cancer Research Communications
Cancer Research Communications (2024) 4 (5): 1369–1379.
https://doi.org/10.1158/2767-9764.CRC-23-0546
Published: 30 May 2024
View article titled, Pan-Cancer Interrogation of B7-H3 (<em>CD276</em>) as an Actionable Therapeutic Target Across Human Malignancies
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Includes: Supplementary data
Journal Articles

Modeling Myeloma Dissemination In Vitro with hMSC-interacting Subpopulations of INA-6 Cells and Their Aggregation/Detachment Dynamics

Martin Kuric, Susanne Beck, Doris Schneider, Wyonna Rindt, Marietheres Evers, Jutta Meißner-Weigl, Sabine Zeck, Melanie Krug, Marietta Herrmann, Tanja Nicole Hartmann, Ellen Leich, Maximilian Rudert, Denitsa Docheva, Anja Seckinger, Dirk Hose, Franziska Jundt, Regina Ebert
Journal: Cancer Research Communications
Cancer Research Communications (2024) 4 (4): 1150–1164.
https://doi.org/10.1158/2767-9764.CRC-23-0411
Published: 29 April 2024
View article titled, Modeling Myeloma Dissemination <em>In Vitro</em> with hMSC-interacting Subpopulations of INA-6 Cells and Their Aggregation/Detachment Dynamics
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Includes: Multimedia, Supplementary data
Journal Articles

Proteasome Inhibition Reprograms Chromatin Landscape in Breast Cancer

H. Karimi Kinyamu, Brian D. Bennett, James M. Ward, Trevor K. Archer
Journal: Cancer Research Communications
Cancer Research Communications (2024) 4 (4): 1082–1099.
https://doi.org/10.1158/2767-9764.CRC-23-0476
Published: 16 April 2024
View article titled, Proteasome Inhibition Reprograms Chromatin Landscape in Breast Cancer
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Includes: Supplementary data
Journal Articles

Natural History of Germline BRCA1 Mutated and BRCA Wild-type Triple-negative Breast Cancer

Nilesh Gardi, Rohan Chaubal, Pallavi Parab, Sunil Pachakar, Suyash Kulkarni, Tanuja Shet, Shalaka Joshi, Yogesh Kembhavi, Pratik Chandrani, Jelmar Quist, Pradnya Kowtal, Anita Grigoriadis, Rajiv Sarin, Raman Govindarajan, Sudeep Gupta
Journal: Cancer Research Communications
Cancer Research Communications (2024) 4 (2): 404–417.
https://doi.org/10.1158/2767-9764.CRC-23-0277
Published: 14 February 2024
View article titled, Natural History of Germline <em>BRCA1</em> Mutated and <em>BRCA</em> Wild-type Triple-negative Breast Cancer
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Includes: Supplementary data
Journal Articles

A Bioinformatics Tool for Identifying Intratumoral Microbes from the ORIEN Dataset

Cankun Wang, Anjun Ma, Yingjie Li, Megan E. McNutt, Shiqi Zhang, Jiangjiang Zhu, Rebecca Hoyd, Caroline E. Wheeler, Lary A. Robinson, Carlos H.F. Chan, Yousef Zakharia, Rebecca D. Dodd, Cornelia M. Ulrich, Sheetal Hardikar, Michelle L. Churchman, Ahmad A. Tarhini, Eric A. Singer, Alexandra P. Ikeguchi, Martin D. McCarter, Nicholas Denko, Gabriel Tinoco, Marium Husain, Ning Jin, Afaf E.G. Osman, Islam Eljilany, Aik Choon Tan, Samuel S. Coleman, Louis Denko, Gregory Riedlinger, Bryan P. Schneider, Daniel Spakowicz, Qin Ma, the exORIEN Consortium
Journal: Cancer Research Communications
Cancer Research Communications (2024) 4 (2): 293–302.
https://doi.org/10.1158/2767-9764.CRC-23-0213
Published: 05 February 2024
View article titled, A Bioinformatics Tool for Identifying Intratumoral Microbes from the ORIEN Dataset
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Includes: Supplementary data
Journal Articles

A Revised Molecular Model of Ovarian Cancer Biomarker CA125 (MUC16) Enabled by Long-read Sequencing

Chien-Wei Wang, Simon D. Weaver, Nicha Boonpattrawong, Naviya Schuster-Little, Manish Patankar, Rebecca J. Whelan
Journal: Cancer Research Communications
Cancer Research Communications (2024) 4 (1): 253–263.
https://doi.org/10.1158/2767-9764.CRC-23-0327
Published: 31 January 2024
View article titled, A Revised Molecular Model of Ovarian Cancer Biomarker CA125 (MUC16) Enabled by Long-read Sequencing
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Includes: Supplementary data
Journal Articles

Ultra-Deep Sequencing Reveals the Mutational Landscape of Classical Hodgkin Lymphoma

Felicia Gomez, Bryan Fisk, Joshua F. McMichael, Matthew Mosior, Jennifer A. Foltz, Zachary L. Skidmore, Eric J. Duncavage, Christopher A. Miller, Haley Abel, Yi-Shan Li, David A. Russler-Germain, Kilannin Krysiak, Marcus P. Watkins, Cody A. Ramirez, Alina Schmidt, Fernanda Martins Rodrigues, Lee Trani, Ajay Khanna, Julia A. Wagner, Robert S. Fulton, Catrina C. Fronick, Michelle D. O'Laughlin, Timothy Schappe, Amanda F. Cashen, Neha Mehta-Shah, Brad S. Kahl, Jason Walker, Nancy L. Bartlett, Malachi Griffith, Todd A. Fehniger, Obi L. Griffith
Journal: Cancer Research Communications
Cancer Research Communications (2023) 3 (11): 2312–2330.
https://doi.org/10.1158/2767-9764.CRC-23-0140
Published: 15 November 2023
View article titled, Ultra-Deep Sequencing Reveals the Mutational Landscape of Classical Hodgkin Lymphoma
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Includes: Supplementary data
Journal Articles

Risk Prediction of Metachronous Colorectal Cancer from Molecular Features of Adenomas: A Nested Case–Control Study

Henriette C. Jodal, Eddymurphy U. Akwiwu, Margriet Lemmens, Pien M. Delis-van Diemen, Dagmar Klotz, Leticia G. Leon, Soufyan Lakbir, Meike de Wit, Remond J.A. Fijneman, Monique E. van Leerdam, Evelien Dekker, Manon C.W. Spaander, Gerrit A. Meijer, Magnus Løberg, Veerle M.H. Coupé, Mette Kalager, Beatriz Carvalho
Journal: Cancer Research Communications
Cancer Research Communications (2023) 3 (11): 2292–2301.
https://doi.org/10.1158/2767-9764.CRC-23-0186
Published: 13 November 2023
View article titled, Risk Prediction of Metachronous Colorectal Cancer from Molecular Features of Adenomas: A Nested Case–Control Study
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Includes: Supplementary data
Journal Articles

Integrated Molecular Characterization of Intraductal Papillary Mucinous Neoplasms: An NCI Cancer Moonshot Precancer Atlas Pilot Project

Alexander Semaan, Vincent Bernard, Justin Wong, Yuki Makino, Daniel B. Swartzlander, Kimal I. Rajapakshe, Jaewon J. Lee, Adam Officer, Christian Max Schmidt, Howard H. Wu, Courtney L. Scaife, Kajsa E. Affolter, Daniela Nachmanson, Matthew A. Firpo, Michele Yip-Schneider, Andrew M. Lowy, Olivier Harismendy, Subrata Sen, Anirban Maitra, Yasminka A. Jakubek, Paola A. Guerrero
Journal: Cancer Research Communications
Cancer Research Communications (2023) 3 (10): 2062–2073.
https://doi.org/10.1158/2767-9764.CRC-22-0419
Published: 10 October 2023
View article titled, Integrated Molecular Characterization of Intraductal Papillary Mucinous Neoplasms: An NCI Cancer Moonshot Precancer Atlas Pilot Project
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Includes: Supplementary data
Journal Articles

Characterizing the Immune Microenvironment and Neoantigen Landscape of Hürthle Cell Carcinoma to Identify Potential Immunologic Vulnerabilities

Ian Ganly, Fengshen Kuo, Vladimir Makarov, Yiyu Dong, Ronald Ghossein, Bin Xu, Luc G.T. Morris, Timothy A. Chan
Journal: Cancer Research Communications
Cancer Research Communications (2023) 3 (7): 1409–1422.
https://doi.org/10.1158/2767-9764.CRC-23-0120
Published: 31 July 2023
View article titled, Characterizing the Immune Microenvironment and Neoantigen Landscape of Hürthle Cell Carcinoma to Identify Potential Immunologic Vulnerabilities
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Includes: Supplementary data
Journal Articles

Immunologic Characterization and T cell Receptor Repertoires of Expanded Tumor-infiltrating Lymphocytes in Patients with Renal Cell Carcinoma

Moon Hee Lee, Jason Theodoropoulos, Jani Huuhtanen, Dipabarna Bhattacharya, Petrus Järvinen, Sara Tornberg, Harry Nísen, Tuomas Mirtti, Ilona Uski, Anita Kumari, Karita Peltonen, Arianna Draghi, Marco Donia, Anna Kreutzman, Satu Mustjoki
Journal: Cancer Research Communications
Cancer Research Communications (2023) 3 (7): 1260–1276.
https://doi.org/10.1158/2767-9764.CRC-22-0514
Published: 18 July 2023
View article titled, Immunologic Characterization and T cell Receptor Repertoires of Expanded Tumor-infiltrating Lymphocytes in Patients with Renal Cell Carcinoma
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Includes: Supplementary data
Journal Articles

Enhanced Detection of Landmark Minimal Residual Disease in Lung Cancer Using Cell-free DNA Fragmentomics

Siwei Wang, Zhijun Xia, Jing You, Xiaolan Gu, Fanchen Meng, Peng Chen, Wanxiangfu Tang, Hua Bao, Jingyuan Zhang, Xue Wu, Yang Shao, Jie Wang, Xianglin Zuo, Lin Xu, Rong Yin
Journal: Cancer Research Communications
Cancer Research Communications (2023) 3 (5): 933–942.
https://doi.org/10.1158/2767-9764.CRC-22-0363
Published: 30 May 2023
View article titled, Enhanced Detection of Landmark Minimal Residual Disease in Lung Cancer Using Cell-free DNA Fragmentomics
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Includes: Supplementary data
Journal Articles

Integrative Metatranscriptomic Analysis Reveals Disease-specific Microbiome–host Interactions in Oral Squamous Cell Carcinoma

Vinay Jain, Divyashri Baraniya, Doaa E. El-Hadedy, Tsute Chen, Michael Slifker, Fadhl Alakwaa, Kathy Q. Cai, Kumaraswamy N. Chitrala, Christopher Fundakowski, Nezar N. Al-Hebshi
Journal: Cancer Research Communications
Cancer Research Communications (2023) 3 (5): 807–820.
https://doi.org/10.1158/2767-9764.CRC-22-0349
Published: 08 May 2023
View article titled, Integrative Metatranscriptomic Analysis Reveals Disease-specific Microbiome–host Interactions in Oral Squamous Cell Carcinoma
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Includes: Supplementary data
Journal Articles

Ultra High-plex Spatial Proteogenomic Investigation of Giant Cell Glioblastoma Multiforme Immune Infiltrates Reveals Distinct Protein and RNA Expression Profiles

Shilah A. Bonnett, Alyssa B. Rosenbloom, Giang T. Ong, Mark Conner, Aric B.E. Rininger, Daniel Newhouse, Felicia New, Chi Q. Phan, Saskia Ilcisin, Hiromi Sato, John S. Lyssand, Gary Geiss, Joseph M. Beechem
Journal: Cancer Research Communications
Cancer Research Communications (2023) 3 (5): 763–779.
https://doi.org/10.1158/2767-9764.CRC-22-0396
Published: 03 May 2023
View article titled, Ultra High-plex Spatial Proteogenomic Investigation of Giant Cell Glioblastoma Multiforme Immune Infiltrates Reveals Distinct Protein and RNA Expression Profiles
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Includes: Supplementary data
Journal Articles

Whole-genome and Epigenomic Landscapes of Malignant Gastrointestinal Stromal Tumors Harboring KIT Exon 11 557–558 Deletion Mutations

Keiichi Ohshima, Takeshi Nagashima, Keiichi Fujiya, Keiichi Hatakeyama, Yuko Watanabe, Kimiko Morimoto, Fukumi Kamada, Yuji Shimoda, Sumiko Ohnami, Akane Naruoka, Masakuni Serizawa, Shumpei Ohnami, Hirotsugu Kenmotsu, Akio Shiomi, Yasuhiro Tsubosa, Etsuro Bando, Teiichi Sugiura, Takashi Sugino, Masanori Terashima, Katsuhiko Uesaka, Kenichi Urakami, Yasuto Akiyama, Ken Yamaguchi
Journal: Cancer Research Communications
Cancer Research Communications (2023) 3 (4): 684–696.
https://doi.org/10.1158/2767-9764.CRC-22-0364
Published: 24 April 2023
View article titled, Whole-genome and Epigenomic Landscapes of Malignant Gastrointestinal Stromal Tumors Harboring <em>KIT</em> Exon 11 557–558 Deletion Mutations
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Includes: Supplementary data
Journal Articles

Structurally Complex Osteosarcoma Genomes Exhibit Limited Heterogeneity within Individual Tumors and across Evolutionary Time

Sanjana Rajan, Simone Zaccaria, Matthew V. Cannon, Maren Cam, Amy C. Gross, Benjamin J. Raphael, Ryan D. Roberts
Journal: Cancer Research Communications
Cancer Research Communications (2023) 3 (4): 564–575.
https://doi.org/10.1158/2767-9764.CRC-22-0348
Published: 12 April 2023
View article titled, Structurally Complex Osteosarcoma Genomes Exhibit Limited Heterogeneity within Individual Tumors and across Evolutionary Time
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Includes: Supplementary data
Journal Articles

Uterine Lavage Identifies Cancer Mutations and Increased TP53 Somatic Mutation Burden in Individuals with Ovarian Cancer

Talayeh S. Ghezelayagh, Brendan F. Kohrn, Jeanne Fredrickson, Enna Manhardt, Marc R. Radke, Ronit Katz, Heidi J. Gray, Renata R. Urban, Kathryn P. Pennington, John B. Liao, Kemi M. Doll, Elise J. Simons, Jennifer K. Burzawa, Barbara A. Goff, Paul Speiser, Elizabeth M. Swisher, Barbara M. Norquist, Rosa Ana Risques
Journal: Cancer Research Communications
Cancer Research Communications (2022) 2 (10): 1282–1292.
https://doi.org/10.1158/2767-9764.CRC-22-0314
Published: 27 October 2022
View article titled, Uterine Lavage Identifies Cancer Mutations and Increased <em>TP53</em> Somatic Mutation Burden in Individuals with Ovarian Cancer
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Includes: Supplementary data
Journal Articles

In Silico Epitope Prediction Analyses Highlight the Potential for Distracting Antigen Immunodominance with Allogeneic Cancer Vaccines

C. Alston James, Peter Ronning, Darren Cullinan, Kelsy C. Cotto, Erica K. Barnell, Katie M. Campbell, Zachary L. Skidmore, Dominic E. Sanford, S. Peter Goedegebuure, William E. Gillanders, Obi L. Griffith, William G. Hawkins, Malachi Griffith
Journal: Cancer Research Communications
Cancer Research Communications (2021) 1 (2): 115–126.
https://doi.org/10.1158/2767-9764.CRC-21-0029
Published: 30 November 2021
View article titled, <em>In Silico</em> Epitope Prediction Analyses Highlight the Potential for Distracting Antigen Immunodominance with Allogeneic Cancer Vaccines
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Includes: Supplementary data
Journal Articles

The Genetic Landscape of Ocular Adnexa MALT Lymphoma Reveals Frequent Aberrations in NFAT and MEF2B Signaling Pathways

Marco Magistri, Lanie E. Happ, Jeremy Ramdial, XiaoQing Lu, Vasileios Stathias, Kranthi Kunkalla, Nitin Agarwal, Xiaoyu Jiang, Stephan C. Schürer, Sander R. Dubovy, Jennifer R. Chapman, Francisco Vega, Sandeep Dave, Izidore S. Lossos
Journal: Cancer Research Communications
Cancer Research Communications (2021) 1 (1): 1–16.
https://doi.org/10.1158/2767-9764.CRC-21-0022
Published: 13 October 2021
View article titled, The Genetic Landscape of Ocular Adnexa MALT Lymphoma Reveals Frequent Aberrations in NFAT and MEF2B Signaling Pathways
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Includes: Supplementary data