Article
Cell Biology
Yutian Zou, Jindong Xie, Wenwen Tian, Linyu Wu, Yi Xie, Shanshan Huang, Yuhui Tang, Xinpei Deng, Hao Wu, Xinhua Xie
Summary: This study comprehensively analyzed the expression, alteration, prognosis, and biological functions of various KCNK genes in breast cancer. It found that the expression of certain KCNK genes was correlated with the prognosis of breast cancer patients and some genes had a high mutation rate. A prognostic signature with predictive performance was established, and a nomogram combining KCNK-based risk score with clinical features was constructed. In addition, KCNKs were associated with the activation of tumor microenvironment cells and may regulate breast cancer progression by modulating immune response.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Anamika Thalor, Hemant Kumar Joon, Gagandeep Singh, Shikha Roy, Dinesh Gupta
Summary: Tumor heterogeneity and unclear metastasis mechanisms are the main challenges in treating Triple-negative breast cancer (TNBC). In this study, gene expression datasets were analyzed to identify gene signatures that can differentiate TNBC from other breast cancer subtypes. Machine learning algorithms were used to evaluate the performance of these signatures, and potential prognostic genes were discovered. Pathway enrichment analyses revealed the functional role of these genes in the metastasis cascade.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2022)
Article
Chemistry, Analytical
Kerwin Kwek Zeming, Ri Lu, Kai Lee Woo, Guoyun Sun, Kai Yun Quek, Lih Feng Cheow, Chia-Hung Chen, Jongyoon Han, Shir Lynn Lim
Summary: This study successfully achieved multiplexed analysis of single-cell enzyme secretion from leukocytes through a fully integrated system, analyzing from undiluted blood samples without preprocessing steps, potentially elucidating immune response states.
ANALYTICAL CHEMISTRY
(2021)
Article
Oncology
Zi-Li Huang, Bin Xu, Ting-Ting Li, Yong-Hua Xu, Xin-Yu Huang, Xiu-Yan Huang
Summary: In this study, a multivariable Cox model was developed based on the expression of 8 identified genes to accurately predict HCC recurrence. The risk stratification using this model showed excellent performance in predicting HCC recurrence. Moreover, the study also investigated the cell-type-specific expression patterns of these genes in the tumor microenvironment and interpreted their functional roles.
FRONTIERS IN ONCOLOGY
(2022)
Article
Biotechnology & Applied Microbiology
Jianfeng Ding, Xiaobo He, Jinkun Wang, Guodong Cao, Sihan Chen, Liping Yuan, Bo Chen, Maoming Xiong
Summary: The study revealed that the expression of SKA1/2/3 is upregulated in breast cancer, with SKA1 overexpression associated with poorer prognosis. SKA genes may serve as a promising therapeutic target for breast cancer patients.
Article
Immunology
Tao Wang, Tianye Li, Baiqing Li, Jiahui Zhao, Zhi Li, Mingyi Sun, Yan Li, Yanjiao Zhao, Shidi Zhao, Weiguang He, Xiao Guo, Rongjing Ge, Lian Wang, Dushan Ding, Saisai Liu, Simin Min, Xiaonan Zhang
Summary: Breast cancer has different immune subtypes with diverse characteristics and clinical prognostications. Patients with a high immunotherapeutic benefit score (ITBscore) have better response to immunotherapy, while those with a low ITBscore have poor immunotherapeutic efficacy. This study provides insights into the immune phenotypes in the tumor microenvironment and guides precision immuno-oncology and immunotherapy strategies.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Oncology
Lu Yang, Peixin Tan, Hengwen Sun, Zijun Zeng, Yi Pan
Summary: Lactate metabolism is closely related to the prognosis of breast cancer. Breast cancer patients with high Lactate Metabolism Index (LMI) have lower survival rates and more severe clinical features. A prognostic nomogram combining LMI, age, and AJCC stage can effectively predict the overall survival of breast cancer patients. Lactate metabolism plays an important role in immune escape and immunotherapy in breast cancer.
FRONTIERS IN ONCOLOGY
(2022)
Article
Oncology
Chaoran Zang, Yan Zhao, Ling Qin, Guihai Liu, Jianping Sun, Kang Li, Yanan Zhao, Shoupeng Sheng, Honghai Zhang, Ning He, Peng Zhao, Qi Wang, Xi Li, Yanchun Peng, Tao Dong, Yonghong Zhang
Summary: The study revealed specific T cell responses against CTAs and TAAs in HCC patients. In early-stage HCC patients, SALL4-specific response was the most prominent, followed by MAGE-A3, NY-ESO-1, MAGE-A1, and SSX2. The protective role of CTA-specific responses was suggested for one-year recurrence-free survival after treatment. As HCC progressed, CTA and SALL4-specific T cell responses decreased while AFP-specific response increased, indicating the potential of immunotherapy at an early stage of HCC.
Article
Immunology
Songang Wu, Xuewen Li, Fan Hong, Qiang Chen, Yingying Yu, Shuanghui Guo, Yuanyuan Xie, Naian Xiao, Xuwen Kong, Wei Mo, Zhanxiang Wang, Shaoxuan Chen, Feng Zeng
Summary: This study used machine learning-based method to integrate public scRNA-seq datasets and established a comprehensive atlas of immune cells infiltrating in cross-age GBM. The findings showed remarkable differences in immune cell compositions across ages, with a significant increase of extracranial monocyte-derived macrophages (MDMs) in senior patients, which contributes to worse prognosis.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Oncology
Chengyang Song, Fangjian Shang, Wei Tu, Xiaodan Liu
Summary: This study found that DIP2B is highly expressed in multiple cancer types and is significantly associated with poor overall survival in breast invasive carcinoma (BRCA), mesothelioma, and chromophobe renal cell carcinoma. In addition, DIP2B expression in BRCA is related to immune cell infiltration, immune-related gene expression, and clinicopathological features. The results suggest that DIP2B may serve as a prognostic biomarker for BRCA, especially the Her-2 + subtype.
Article
Multidisciplinary Sciences
C. Dominguez Conde, C. Xu, L. B. Jarvis, D. B. Rainbow, S. B. Wells, T. Gomes, S. K. Howlett, O. Suchanek, K. Polanski, H. W. King, L. Mamanova, N. Huang, P. A. Szabo, L. Richardson, L. Bolt, E. S. Fasouli, K. T. Mahbubani, M. Prete, L. Tuck, N. Richoz, Z. K. Tuong, L. Campos, H. S. Mousa, E. J. Needham, S. Pritchard, T. Li, R. Elmentaite, J. Park, E. Rahmani, D. Chen, D. K. Menon, O. A. Bayraktar, L. K. James, K. B. Meyer, N. Yosef, M. R. Clatworthy, P. A. Sims, D. L. Farber, K. Saeb-Parsy, J. L. Jones, S. A. Teichmann
Summary: This study investigated immune cells in 16 human tissues using single-cell RNA sequencing and VDJ sequencing, revealing the distribution of finely phenotyped immune cell types across tissues and uncovering tissue-specific features and clonal architecture of T and B cells.
Article
Immunology
Yi-Jiang Song, Yanyang Xu, Chuangzhong Deng, Xiaojun Zhu, Jianchang Fu, Hongmin Chen, Jinchang Lu, Huaiyuan Xu, Guohui Song, Qinglian Tang, Jin Wang
Summary: This study established a new classification system for osteosarcoma based on the gene expression profile of the tumor microenvironment, identifying two molecular subtypes associated with prognosis, S1 (infiltration type) and S2 (escape type). The study found that immune and stromal infiltrates were more abundant in subtype S1 compared to subtype S2, and certain immune checkpoint markers were associated with prognosis in subtype S1. Furthermore, the study confirmed the results using a validation set and assessed correlations between fibroblast percentage and clinical responses to chemotherapy in osteosarcoma primary tumors.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Hematology
Diana O. Treaba, Dennis M. Bonal, Anna Chorzalska, Mireia Castillo-Martin, Alissa Oakes, Makayla Pardo, Max Petersen, Christoph Schorl, Kelsey Hopkins, Dean Melcher, Ting C. Zhao, Olin Liang, Eui-Young So, John Reagan, Adam J. Olszewski, James Butera, Douglas C. Anthony, Peter Rintels, Peter Quesenberry, Patrycja M. Dubielecka
Summary: This study evaluated the impact of anthracycline- and cytarabine-based induction chemotherapy on the bone marrow microenvironment in acute myeloid leukemia (AML). Using RNA-seq and histological analysis, the researchers found distinct osteogenic and mesenchymal transcriptome profiles in responders and non-responders to chemotherapy. These findings provide valuable insights into the specific treatment response of AML and may inform optimized therapeutic strategies.
BRITISH JOURNAL OF HAEMATOLOGY
(2023)
Article
Oncology
Ania Alay, David Cordero, Sara Hijazo-Pechero, Elisabet Aliagas, Adriana Lopez-Doriga, Raul Marin, Ramon Palmero, Roger Llatjos, Ignacio Escobar, Ricard Ramos, Susana Padrones, Victor Moreno, Ernest Nadal, Xavier Sole
Summary: This study identifies T-helper 2 (T-H2) and cytotoxic T (T-C) cells as key factors associated with overall survival in malignant pleural mesothelioma (MPM). Three immune clusters were defined based on the levels of T-H2 and T-C immune infiltration, with the IG1 and IG3 groups showing associations with worse and better overall survival, respectively. Integration of gene expression with functional signatures of drug response showed that IG3 patients might be more likely to respond to immune-based therapies.
JOURNAL FOR IMMUNOTHERAPY OF CANCER
(2021)
Article
Biochemistry & Molecular Biology
Miguel A. Idoate Gastearena, Alvaro Lopez-Janeiro, Arturo Lecumberri Aznarez, Inigo Arana-Iniguez, Francisco Guillen-Grima
Summary: Immunostimulatory therapies using immune checkpoint blockers show clinical activity in a subset of glioblastoma (GBM) patients. The tumor immune microenvironment and immune biomarkers play important roles in the immune response to GBM. The expression of CD8 is positively correlated with lymphocyte immunosuppression mechanisms and other immune biomarkers. High expressions of CD8 and CD163 are associated with shorter survival durations.
Article
Biochemistry & Molecular Biology
Molly H. Jenkins, Walburga Croteauz, David W. Mullins, Constance E. Brinckerhoff
Article
Gastroenterology & Hepatology
Brian Bressler, Kevin P. Bethel, Ralf Kleef, Sophie L. Reynolds, Simon Sutcliffe, DavidW. Mullins, Hal Gunn
GASTROENTEROLOGY RESEARCH AND PRACTICE
(2015)
Article
Oncology
Eleanor Clancy-Thompson, Thomas J. Perekslis, Walburga Croteau, Matthew P. Alexander, Tamer B. Chabanet, Mary Jo Turk, Yina H. Huang, David W. Mullins
CANCER IMMUNOLOGY RESEARCH
(2015)
Article
Oncology
Ileana S. Mauldin, Nolan A. Wages, Anne M. Stowman, Ena Wang, Mark E. Smolkin, Walter C. Olson, Donna H. Deacon, Kelly T. Smith, Nadedja V. Galeassi, Kimberly A. Chianese-Bullock, Lynn T. Dengel, Francesco M. Marincola, Gina R. Petroni, David W. Mullins, Craig L. Slingluff
CANCER IMMUNOLOGY IMMUNOTHERAPY
(2016)
Article
Oncology
Ileana S. Mauldin, Nolan A. Wages, Anne M. Stowman, Ena Wang, Walter C. Olson, Donna H. Deacon, Kelly T. Smith, Nadedja Galeassi, Jessica E. Teague, Mark E. Smolkin, Kimberly A. Chianese-Bullock, Rachael A. Clark, Gina R. Petroni, Francesco M. Marincola, David W. Mullins, Craig L. Slingluff
CANCER IMMUNOLOGY IMMUNOTHERAPY
(2016)
Review
Immunology
Frederick S. Varn, David W. Mullins, Hugo Arias-Pulido, Steven Fiering, Chao Cheng
Article
Oncology
Chery A. Whipple, Andrea Boni, Jan L. Fisher, Thomas H. Hampton, Gregory J. Tsongalis, Diane L. Mellinger, Shaofeng Yan, Laura J. Tafe, Constance E. Brinckerhoff, Mary J. Turk, David W. Mullins, Camilo E. Fadul, Marc S. Ernstoff
Article
Multidisciplinary Sciences
Kiah L. Butler, Eleanor Clancy-Thompson, David W. Mullins
SCIENTIFIC REPORTS
(2017)
Article
Oncology
Mark Bazett, Amanda M. Costa, Momir Bosiljcic, Rebecca M. Anderson, Matthew P. Alexander, Stephanie W. Y. Wong, Salim Dhanji, Jenny M. H. Chen, Jim Pankovich, Stephen Lam, Simon Sutcliffe, Hal Gunn, Shirin Kalyan, David W. Mullins
Article
Oncology
Matthew P. Alexander, Steven N. Fiering, Gary R. Ostroff, Robert A. Cramer, David W. Mullins
CANCER IMMUNOLOGY IMMUNOTHERAPY
(2018)
Article
Oncology
Molly H. Jenkins, Shannon M. Steinberg, Matthew P. Alexander, Jan L. Fisher, Marc S. Ernstoff, Mary Jo Turk, David W. Mullins, Constance E. Brinckerhoff
PIGMENT CELL & MELANOMA RESEARCH
(2014)
Article
Multidisciplinary Sciences
Molly H. Jenkins, Constance E. Brinckerhoff, David W. Mullins
Article
Multidisciplinary Sciences
Shirin Kalyan, Mark Bazett, Ho Pan Sham, Momir Bosiljcic, Beryl Luk, Salim Dhanji, Amanda M. Costa, Stephanie W. Y. Wong, Mihai G. Netea, David W. Mullins, Hal Gunn
SCIENTIFIC REPORTS
(2020)
Article
Oncology
Frederick S. Varn, Yue Wang, David W. Mullins, Steven Fiering, Chao Cheng
