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Biochemistry & Molecular Biology
Xiaohan Tang, Junting Wang, Huan Tao, Lin Yuan, Guifang Du, Yang Ding, Kang Xu, Xuemei Bai, Yaru Li, Yu Sun, Xin Huang, Xiushuang Zheng, Qianqian Li, Bowen Gong, Yang Zheng, Jingxuan Xu, Xiang Xu, Zhe Wang, Xiaochen Bo, Meisong Lu, Hao Li, Hebing Chen
Summary: This study identified and characterized transcription factor binding site clustered regions (TFCRs) by analyzing chromatin accessibility and transcription factor binding information, and explored the relationship between TFCRs, regulatory elements, gene expression, and mutations. A bioinformatic framework was constructed to identify candidate oncogenes, and 13 candidate key genes were screened, which may serve as potential diagnostic markers or therapeutic targets for endometrial cancer.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2022)
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Genetics & Heredity
Lirong Yang, Yang Yang, Mingyao Meng, Wenju Wang, Shan He, Yiyi Zhao, Hui Gao, Weiwei Tang, Shijie Liu, Zhuying Lin, Lin Li, Zongliu Hou
Summary: By analyzing the gene expression profiles and clinical data of 307 cervical cancer patients from the TCGA database, it was found that immune scores were associated with patient survival, T cells and mast cells were significantly related to survival rates, and the CCR5 and CXCL9,-10,-11/CXCR3 axis may serve as potential targets for cervical cancer treatment.
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Oncology
Zhenhua Zhang, Kechao Xiang, Longjing Tan, Xiuju Du, Huailin He, Dan Li, Li Li, Qinglian Wen
Summary: This study identified key genes associated with the sensitivity of radiotherapy and prognosis in cervical cancer through bioinformatics analysis. ASPH and NKAPP1 were validated as genes affecting radiotherapy sensitivity and survival. These findings contribute to a better understanding of the mechanisms of radiotherapy resistance in cervical cancer and provide new research ideas for potential therapeutic targets.
FRONTIERS IN ONCOLOGY
(2022)
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Genetics & Heredity
Yuexun Xu, Hui Luo, Qunchao Hu, Haiyan Zhu
Summary: Integrative multi-platform analysis revealed the wide range of mutations and complex molecular characteristics of cervical cancer. Unsupervised clustering identified four significant expression subtypes, and 10 potential driver genes were identified through multidimensional dataset integration.
FRONTIERS IN GENETICS
(2021)
Article
Biochemistry & Molecular Biology
Chuanyi Zhang, Palash Sashittal, Michael Xiang, Yichi Zhang, Ayesha Kazi, Mohammed El-Kebir
Summary: This study introduces two problems aimed at identifying transcription regulatory sequences (TRSs) and their associated genes in coronaviruses. The first problem focuses on identifying TRS sites with given gene locations, while the second problem simultaneously identifies TRS sites and gene locations in unannotated coronavirus genomes. The study presents algorithms (CORSID-A and CORSID) to solve these problems and demonstrates their superiority over existing methods in TRS and gene identification.
MOLECULAR BIOLOGY AND EVOLUTION
(2022)
Article
Biology
Carter J. Barger, Linda Chee, Mustafa Albahrani, Catalina Munoz-Trujillo, Lidia Boghean, Connor Branick, Kunle Odunsi, Ronny Drapkin, Lee Zou, Adam R. Karpf
Summary: FOXM1 and RHNO1 are co-amplified and co-expressed in high-grade serous carcinoma, and their bidirectional promoter may serve as a potential therapeutic target for ovarian and other cancers. Their oncogenic properties in HGSC cells highlight the significance of targeting the FOXM1/RHNO1 gene pair in cancer therapy.
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Oncology
Heng Zou, Huijia Chen, Shuaibin Liu, Xiaoling Gan
Summary: The research identified the regulatory network of circ_0018289/miR-183-5p/TMED5 as a novel molecular basis underlying the modulation of cervical carcinogenesis. Circ_0018289 played a role in influencing cell proliferation, apoptosis, and angiogenesis in cervical cancer, partially mediated by miR-183-5p and TMED5.
WORLD JOURNAL OF SURGICAL ONCOLOGY
(2021)
Article
Oncology
Xiaopeng Shen, Chunguang Wang, Meng Li, Sufen Wang, Yun Zhao, Zhongxian Liu, Guoping Zhu
Summary: This study revealed that increased CD8+ T cell infiltration in cervical cancer is associated with better prognosis. Through gene analysis, four genes were identified as potential predictors of cervical cancer prognosis. These findings enhance our understanding of the prognostic value of CD8+ T cell infiltration and its associated genes in cervical cancer, and may have implications for future immune-related therapies.
FRONTIERS IN ONCOLOGY
(2022)
Article
Oncology
Dongho Kim, Yujin Kim, Bo Bin Lee, Eun Yoon Cho, Joungho Han, Young Mog Shim, Duk-Hwan Kim
Summary: The study investigated the impact of metformin on epigenetic regulation in lung cancer cells, demonstrating that metformin reduced H3K4me3 levels at the promoters of cell cycle regulatory genes by suppressing MLL2 expression. MLL2 was identified as a potential therapeutic target for reducing lung adenocarcinoma recurrence.
Article
Biochemistry & Molecular Biology
Kristian Urh, Margareta Zlajpah, Nina Zidar, Emanuela Bostjancic
Summary: Significant progress has been made in understanding the pathogenetic mechanisms of colorectal cancer (CRC) in the past decade, with cancer stem cells (CSC) and related genes and miRNAs playing crucial roles in CRC development and progression. Further validation in CRC is suggested, particularly for miR-199a-3p and its target gene SLITRK6.
Article
Cell Biology
Cencan Xing, Zehua Zeng, Yaqi Li, Bo Gong, Weimin Shen, Roshan Shah, Lu Yan, Hongwu Du, Anming Meng
Summary: Activation of nodal genes is critical for embryonic germ layer induction. This study revealed the activation mechanisms of nodal genes ndr1 and ndr2 and found that they are regulated by different cis-regulatory regions.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Biochemical Research Methods
Feng Pang, Dong Shi, Lin Yuan
Summary: Cervical cancer, ovarian cancer, and endometrial cancer are the top three cancers in women. This study utilized gene chip and high-throughput sequencing technology to analyze genomic functional omics data and identify potential markers for diagnosis and treatment. The study also explored common differentially expressed genes (DEGs) among these cancers using public databases. The results revealed that DEGs were involved in biological processes such as cell division, mitotic nuclear division, sister chromatid cohesion, and DNA replication. The DEGs also exhibited specific functions in cell components and molecular functions. Additionally, pathway analysis indicated enrichment of upregulated DEGs in cell cycle-related pathways, while downregulated DEGs were enriched in pathways related to thiamine metabolism and protein processing in the endoplasmic reticulum. The most significant module was associated with cell division and microtubule motor activity.
CURRENT BIOINFORMATICS
(2023)
Article
Biochemistry & Molecular Biology
Ksenia Strygina, Elena Khlestkina
Summary: Flavonoids play a crucial role in plant development and stress protection, with the biosynthesis regulated by various enzymes. Methylation may impact the expression of TaCHI genes, while differences in promoter structure of TaF3H genes can affect gene expression patterns.
Article
Genetics & Heredity
Sk Md Mosaddek Hossain, Lutfunnesa Khatun, Sumanta Ray, Anirban Mukhopadhyay
Summary: This study proposed a framework for examining the differences in gene expression data between uninfected and three different stages of HIV-1 infection, using gene co-expression networks to detect topological and structural changes of differentially expressed genes, and module preservation statistics to study changes in co-expression patterns. Several interesting results on preservation characteristics of gene modules across different stages were found, and potential biomarkers in HIV-1 progression were identified among key immune regulatory hub genes.
Article
Biotechnology & Applied Microbiology
Yuanyuan Li, Jiushe Kou, Tao Wu, Pengsheng Zheng, Xu Chao
Summary: In this study, the therapeutic targets and regulatory mechanisms of the antitumor drug quercetin in the treatment of cervical cancer were explored. Through RNA sequencing and database analysis, candidate genes and their regulatory network were identified, providing a theoretical basis for targeted therapy of cervical cancer.
ONCOTARGETS AND THERAPY
(2021)