Article
Genetics & Heredity
Qin Yang, Lin Zhu, Mao Ye, Bin Zhang, Peihe Zhan, Hui Li, Wen Zou, Jing Liu
Summary: This study identified the epigenetic mechanisms underlying the reduction of 4.1N/EPB41L1 in NSCLC. The promoter region of the 4.1N/EPB41L1 gene was highly methylated in LUAD and LUSC patients. Higher methylation levels in the 4.1N/EPB41L1 gene promoter were associated with shorter overall survival in LUAD patients and longer overall survival in LUSC patients. The study also found that the expression of miR-454-3p was abnormally high in NSCLC and directly targeted the 4.1N/EPB41L1 mRNA. The findings suggest that promoter hypermethylation and abnormal miR-454-3p expression restrict the expression of 4.1N/EPB41L1 in NSCLC.
FRONTIERS IN GENETICS
(2022)
Article
Immunology
Zhi Wang, Lingling Zhang, Wenwen Xu, Jie Li, Yi Liu, Xiaozhu Zeng, Maoxi Zhong, Yuxi Zhu
Summary: In this study, we identified potential genes associated with EGFR-TKI resistance in lung cancer and found that SPP1 may play a crucial role in resistance to EGFR-TKIs. Furthermore, high expression of SPP1 was also associated with tumor immune infiltration and poor prognosis.
JOURNAL OF INFLAMMATION RESEARCH
(2022)
Review
Immunology
Jiao Zeng, Xinjing Ding, Jianghua Ding, Xin Wang
Summary: Histological transformation can occur in advanced non-small cell lung cancer, both with EGFR mutations following EGFR-TKI treatment and without driver gene mutations after developing resistance to immunotherapy. It is commonly observed as a conversion from lung squamous cell carcinoma to lung adenocarcinoma, with rare cases of conversion into small cell lung cancer.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Cell Biology
Heng Zhou, Yaoqi Zhu, Huizhong Qi, Liang Liang, Hao Wu, Jingping Yuan, Qingyong Hu
Summary: This study evaluated SLC39A genes as biological markers for LUAD prognosis, finding that 11 out of 14 SLC39A genes were significantly associated with LUAD prognosis, especially SLC39A7 played an essential role in LUAD cell survival.
Review
Medicine, Research & Experimental
Xinlin Liang, Anqi Lin, Qiongyao Wang, Jian Zhang, Peng Luo
Summary: The study summarizes the clinical understanding and genome status of transformed small cell lung cancer (SCLC), and discusses current clinical trials related to this transformation. The aim is to identify key molecular markers for predicting the occurrence of the transformation and improve the diagnosis and treatment of patients.
BIOMEDICINE & PHARMACOTHERAPY
(2022)
Article
Multidisciplinary Sciences
Hao Song, Junfeng Wu, Wang Liu, Kaier Cai, Zhilong Xie, Yingao Liu, Jiandi Huang, Siyuan Gan, Yinghuan Xiong, Yanqin Sun
Summary: Objective: This study screened core genes in lung adenocarcinoma (LUAD) using bioinformatics, evaluated their prognosis value and role in immune cell infiltration. Methods: Gene chips from GEO database were analyzed to obtain differentially expressed genes, and then further analyzed using DAVID, Cytoscape, and PPI network analysis. Several databases were used for expression verification, survival analysis, and immune infiltration relationship identification. CCNB2 and CDC20 were identified as vital core genes. Conclusion: CCNB2 and CDC20 are essential genes that may serve as prognostic biomarkers in LUAD and play a role in immune infiltration and protein expression processes.
Article
Biochemical Research Methods
Qi Li, Tijana Milenkovic
Summary: Human aging is associated with prevalent diseases, and identifying aging-related genes is crucial. In this study, we propose a supervised learning framework based on an aging-specific protein-protein interaction (PPI) subnetwork, which outperforms existing methods in predicting aging-related genes.
IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS
(2022)
Article
Plant Sciences
Akshay Singh, Ajay Kumar Mahato, Avantika Maurya, S. Rajkumar, A. K. Singh, Rakesh Bhardwaj, S. K. Kaushik, Sandeep Kumar, Veena Gupta, Kuldeep Singh, Rakesh Singh
Summary: Amaranth is a highly nutritious food crop grown worldwide. The Amaranth Genomic Resource Database (AGRDB) has been developed to provide access to genomic information such as genes, SSRs, SNPs, TFs, miRNAs, and transporters. The database allows for various types of searches and includes tools like JBrowse and BLAST search. AGRDB will be a valuable platform for genetic improvement and characterization of this future crop.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Multidisciplinary Sciences
Cheng He, Gan Zhang, Yanhong Lu, Jingyue Zhou, Zixue Ren
Summary: The study found that DDX17 plays a role in promoting cell proliferation and inhibiting apoptosis in lung adenocarcinoma (LUAD). RNA sequencing identified differential gene expression and alternative splicing events in DDX17 knockdown LUAD cells. The findings suggest that DDX17 regulates the expression and alternative splicing of proliferation- and apoptosis-associated genes in LUAD cells, providing new insights into the molecular mechanisms of LUAD and potential therapeutic directions.
Article
Mathematical & Computational Biology
Fan Zhang, Hongtao Liu
Summary: This study identified ferroptosis-associated genes related to PAH using gene expression data, and explored their regulatory mechanisms and potential therapeutic directions.
MATHEMATICAL BIOSCIENCES AND ENGINEERING
(2021)
Article
Genetics & Heredity
Di Zhang, Yannan Bin
Summary: DriverSubNet is an effective parameter-free algorithm for detecting driver genes in cancers by mining mutation and gene expression information. Compared to classic methods, DriverSubNet can rank driver genes and filter out passenger genes more efficiently, identifying both known and unknown cancer driver genes that could serve as potential therapeutic targets and useful prognostic biomarkers for cancer patients. Therefore, DriverSubNet may serve as a valuable tool for identifying driver genes through subnetwork enrichment analysis.
FRONTIERS IN GENETICS
(2021)
Article
Genetics & Heredity
Guodong Wu, Dingwei Feng, Ziyu Zhang, Gao Zhang, Wei Zhang
Summary: This study identified three molecular subtypes of lung adenocarcinoma (LUAD) based on necroptosis-related genes. The C3 subtype showed better prognosis and higher immune cell infiltration. The C1 subtype had poor prognosis and higher clinical grade, with a high mutation frequency in TP53 gene. Gene set enrichment analysis revealed aberrant cell cycle-related pathways in both C1 and C3 subtypes. A risk model based on necroptosis phenotype-related genes was constructed, showing strong ability to predict survival.
FRONTIERS IN GENETICS
(2022)
Article
Plant Sciences
Julia Rachowka, Anna Anielska-Mazur, Maria Bucholc, Krystyna Stephenson, Anna Kulik
Summary: In plant cells, SnRK2.10 plays a crucial role in the response to environmental stress, and its activation is regulated by the source and intracellular distribution of ROS. Salt stress and ROS accumulation induce the expression of WRKY transcription factors, and this induction is dependent on the activation of SnRK2.10.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Pharmacology & Pharmacy
Yurong Zhang, Tingting Li, Huanqing Liu, Li Wang
Summary: This study established a reliable prognostic-risk model based on basement membrane-related genes, which showed close association with LUAD prognosis. It also revealed the involvement of immune cell infiltration and checkpoints in LUAD. In terms of treatment, low-risk patients may benefit from cyclopamine and docetaxel therapies.
FRONTIERS IN PHARMACOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Victoria Cunha Alves, Joana Figueiro-Silva, Isidre Ferrer, Eva Carro
Summary: Modulation of brain olfactory (OR) and taste receptor (TASR) expression was found in neurological diseases, such as Alzheimer's disease (AD). In this study, the expression and regulation of OR and TASR were explored in the human orbitofrontal cortex (OFC) of sporadic AD patients. The results showed that the genes were downregulated at early stages of AD, suggesting transcriptional regulation through epigenetic mechanisms. The interaction between H3K9me3 and MeCP2 was also discovered, implicating MeCP2 in the transcriptional regulation of OR and TASR in AD.
CELLULAR AND MOLECULAR LIFE SCIENCES
(2023)
