Article
Multidisciplinary Sciences
Muta Tah Hira, M. A. Razzaque, Claudio Angione, James Scrivens, Saladin Sawan, Mosharraf Sarkar
Summary: The research focused on integrated multi-omics analysis of cancer data using VAE and MMD-VAE. The results indicated that MMD-VAE outperformed VAE in most omics datasets, and the compressed features could be used for cancer prognosis.
SCIENTIFIC REPORTS
(2021)
Article
Multidisciplinary Sciences
Buze Chen, Xiaojuan Ding, Ailing Wan, Xin Qi, Xiaoman Lin, Haihong Wang, Wenyu Mu, Gang Wang, Junnian Zheng
Summary: TLX2 plays an important role in multiple tumors and its abnormal expression is associated with a poor overall survival rate in several cancer types. The most common type of alteration in TLX2 is amplification, and it co-occurs with alterations in other genes. TLX2 has high methylation levels in various tumors. Its expression is related to immune infiltration, immune checkpoint genes, and chemoresistance.
SCIENTIFIC REPORTS
(2023)
Article
Cell Biology
Zhong-xin Jiang, Yi-ning Wang, Zi-yuan Li, Zhi-hui Dai, Yi He, Kun Chu, Jia-yi Gu, Yi-Xuan Ji, Ning-xia Sun, Fu Yang, Wen Li
Summary: The study demonstrates that m6A adenine regulates the function of GCs in female ovarian aging by modulating FTO demethylase, which in turn affects ovarian aging. FTO retards ovarian cell aging by regulating FOS expression.
CELL DEATH & DISEASE
(2021)
Article
Oncology
Xiaoqing Yu, Ling Cen, Y. Ann Chen, Joseph Markowitz, Timothy Shaw, Kenneth Y. Tsai, Jose R. Conejo-Garcia, Xuefeng Wang
Summary: DNA methylation signatures can be used as reliable biomarkers to predict patient prognosis and immune status in tumors. This study introduces the concept of tumor-based expression quantitative trait methylation (eQTM) for the identification of predictive biomarkers. eQTM CpGs and genes represent new and efficient candidate targets for prognosis and immune status monitoring.
Article
Oncology
Yicheng Wang, Haoling Xie, Xiaohong Chang, Wenqi Hu, Mengyao Li, Yi Li, Huiping Liu, Hongyan Cheng, Shang Wang, Ling Zhou, Danhua Shen, Sha Dou, Ruiqiong Ma, Yunuo Mao, Honglan Zhu, Xiaobo Zhang, Yuxuan Zheng, Xue Ye, Lu Wen, Kehkooi Kee, Heng Cui, Fuchou Tang
Summary: This study provides insights into the molecular characteristics of high-grade serous ovarian cancer through integrated analysis of multiomic changes and epigenetic regulation. It reveals the upregulation of interferon signaling and metallothioneins, which are influenced by demethylation and hypomethylation. The study also suggests the potential preexistence of metastatic cells in the subclones of primary tumors.
Article
Multidisciplinary Sciences
Ray O. Bahado-Singh, Amin Ibrahim, Zaid Al-Wahab, Buket Aydas, Uppala Radhakrishna, Ali Yilmaz, Sangeetha Vishweswaraiah
Summary: Epithelial ovarian cancer was accurately detected using artificial intelligence and genome-wide epigenetic analysis of circulating cell free tumor DNA. Both logistic regression and multiple AI platforms achieved high diagnostic accuracies. Gene Set Enrichment Analysis identified perturbed molecular pathways in ovarian cancer, adding biological plausibility to the results.
SCIENTIFIC REPORTS
(2022)
Article
Biochemistry & Molecular Biology
Xu Pan, Xin Li, Jie Sun, Zhiying Xiong, Haoyu Hu, Shangwei Ning, Hui Zhi
Summary: This study reveals that DNA methylation can drive tissue-specific enhancer basal transcription and target gene expression in human cancers. By integrating methylome, transcriptome, and 3D genomic data, enhancer methylation triplets were identified and regulatory patterns within them were dissected. Cancer-specific core TFs regulated by enhancers were observed to shape enhancer methylation forming enhancer methylation-driven CRCs (emCRCs).
Article
Biochemistry & Molecular Biology
Jiawen Zhang, Yunfei Chen, Xianfei Chen, Wen Zhang, Linlin Zhao, Linjun Weng, Hongling Tian, Zhiqiang Wu, Xiao Tan, Xin Ge, Ping Wang, Lan Fang
Summary: The study identified that elevated USP35 levels in ovarian cancer correlate with reduced CD8(+) T cell infiltration and poor prognosis in patients. Silencing USP35 enhances STING activity, increases type I interferon expression, and directly deubiquitinates and inactivates STING. Furthermore, USP35 sensitizes ovarian cancer cells to DNA-damage chemotherapeutic drug cisplatin, suggesting its potential as a therapeutic target for ovarian cancer.
CELL DEATH AND DIFFERENTIATION
(2021)
Article
Biochemical Research Methods
Isabelle Bichindaritz, Guanghui Liu, Christopher Bartlett
Summary: The study proposes an adaptive multi-task learning method for survival prediction of breast cancer patients using multi-modal learning, achieving more effective results compared to existing approaches. By combining different gene features, reducing dimensions, and introducing auxiliary loss, an ordinal Cox hazards model is built to predict patients' survival risk.
Review
Biochemistry & Molecular Biology
Nicole E. James, Morgan Woodman, Jennifer R. Ribeiro
Summary: EOC patients have low response rates to immunotherapies, but evidence suggests ovarian tumors are immunogenic and immune-related genomic profiles can serve as prognostic markers. Specific research areas that need to be addressed include developing immune-based prognostic signatures and driving advancements in this field.
Article
Multidisciplinary Sciences
Jesus Gonzalez Bosquet, Eric J. Devor, Andreea M. Newtson, Brian J. Smith, David P. Bender, Michael J. Goodheart, Megan E. McDonald, Terry A. Braun, Kristina W. Thiel, Kimberly K. Leslie
Summary: This study aims to create and validate accurate prediction models for treatment response in HGSC by integrating comprehensive clinical and genomic data. The models achieved prediction performances of over 95% in AUC by integrating clinical and genomic variables. Most performances in the validation set did not differ from the training set, but models with DNA methylation or lncRNA underperformed in the validation set.
SCIENTIFIC REPORTS
(2021)
Article
Cell Biology
Xin-yu Li, Wei-Ning Ma, Li-xin Su, Yuchen Shen, Liming Zhang, Yuhao Shao, Deming Wang, Zhenfeng Wang, Ming-Zhe Wen, Xi-tao Yang
Summary: The study comprehensively evaluated the expression of angiogenesis genes across 33 human cancer types, and found that a high angiogenesis score was associated with aggressive cancer types and poor patient survival.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Cell Biology
Chuan Zhang, Lu Wang, Chi Jin, Jiahui Zhou, Chaofan Peng, Yong Wang, Ziwei Xu, Dongsheng Zhang, Yuanjian Huang, Yue Zhang, Dongjian Ji, Wen Peng, Kangpeng Jin, Junwei Tang, Yifei Feng, Yueming Sun
Summary: Colorectal cancer is a common cancer worldwide, with liver metastasis being a key factor affecting prognosis. A study revealed that Lnc-LALC can regulate CRC cell metastasis ability by affecting DNA methylation status, highlighting its important role in CRLM.
CELL DEATH & DISEASE
(2021)
Article
Medicine, General & Internal
Piotr Jozef Olbromski, Piotr Pawlik, Anna Bogacz, Stefan Sajdak
Summary: Ovarian cancer is a common cause of death among women worldwide. The current diagnostic and prognostic procedures available for the treatment of ovarian cancer are either not specific or are very expensive. This study evaluated the expression of selected genes and found that KRAS, NOXA, PUMA, c-FOS, and c-JUN may be associated with poor prognosis in ovarian cancer.
JOURNAL OF CLINICAL MEDICINE
(2022)
Article
Multidisciplinary Sciences
Amira Alkharusi, Abdullah AlMuslahi, Najwa AlBalushi, Radiya AlAjmi, Sami AlRawahi, Asmaa AlFarqani, Gunnar Norstedt, Fahad Zadjali
Summary: This study investigates the effects of prolactin on ovarian cancer cells, analyzes the expression of PRL receptors in tissue, and links PRLR expression to ovarian cancer survival. The results suggest that PRLR may play a role in promoting tumor aggressiveness and influencing survival rates in ovarian cancer.