keyword
https://read.qxmd.com/read/38492519/new-perspective-of-small-molecule-antiviral-drugs-development-for-rna-viruses
#21
REVIEW
Shasha Li, Huixia Li, Ruiya Lian, Jingying Xie, Ruofei Feng
High variability and adaptability of RNA viruses allows them to spread between humans and animals, causing large-scale infectious diseases which seriously threat human and animal health and social development. At present, AIDS, viral hepatitis and other viral diseases with high incidence and low cure rate are still spreading around the world. The outbreaks of Ebola, Zika, dengue and in particular of the global pandemic of COVID-19 have presented serious challenges to the global public health system. The development of highly effective and broad-spectrum antiviral drugs is a substantial and urgent research subject to deal with the current RNA virus infection and the possible new viral infections in the future...
March 7, 2024: Virology
https://read.qxmd.com/read/38492471/placentae-of-small-appropriately-grown-for-gestational-age-neonates-exhibit-sexually-dimorphic-transcriptomic-changes-representative-of-placental-insufficiency
#22
JOURNAL ARTICLE
Adam Ewing, Jessica L O'Callaghan, Sharon McCracken, Stacy Ellery, Martha Lappas, Olivia J Holland, Anthony Perkins, Zarqa Saif, Vicki L Clifton
INTRODUCTION: Previous studies have reported that neonates less than the 25th BWC especially if they were male, were more likely to be associated with birth complications suggesting small neonates often identified as appropriately grown are at risk of adverse outcomes. We have questioned whether smaller neonates not typically categorized as "small for gestational age" may not reach their genetically determined growth due to placental insufficiency. METHODS: RNA-Seq was performed on the Illumina NovaSeq 600 using term placentae from neonates that were less than the 10th birthweight centile (BWC) (n = 39), between the 10th and the 30th BWC (n = 15) or greater than the 30th BWC (n = 23)...
February 23, 2024: Placenta
https://read.qxmd.com/read/38492425/high-expression-of-trip13-is-associated-with-tumor-progression-in-h-pylori-infection-induced-gastric-cancer
#23
JOURNAL ARTICLE
Longxiang Wu, Qiu Xue, Xiaochun Xia
BACKGROUND/OBJECTIVE: H. pylori is a recognized bacterial carcinogen in the world to cause gastric cancer (GC). However, the molecular mechanism of H. pylori infection-induced GC is not completely clear. Thus, there is an urgent need to reveal the precise mechanisms regulating cancer development due to H. pylori infection. METHODS: GEO microarray databases and TCGA databases were extracted for the analysis of different expression genes (DEGs). Then, Kaplan-Meier Plotter was used for prognostic analysis...
March 8, 2024: Mutation Research
https://read.qxmd.com/read/38492235/adiponectin-inhibits-the-progression-of-obesity-associated-papillary-thyroid-carcinoma-through-autophagy
#24
JOURNAL ARTICLE
Changlin Li, Jiao Zhang, Gianlorenzo Dionigi, Nan Liang, Haixia Guan, Hui Sun
BACKGROUND: Obesity is a risk factor for the development of papillary thyroid cancer (PTC). However, the molecular mechanisms by which obesity promotes PTC is unclear. This study aims to identify adipokines that are linked to PTC progression. METHODS: An adipokine antibody array was used to determine the serum levels of 40 adipokines in normal-weight and obese PTC patients. ELISA was used to determine the serum levels of adiponectin. Recombinant human adiponectin was produced by human adipose-derived stem cells (ASCs) and used to treat PTC cells...
March 16, 2024: Endocrinology
https://read.qxmd.com/read/38491910/activation-of-bivalent-gene-pou4f1-promotes-and-maintains-basal-like-breast-cancer
#25
JOURNAL ARTICLE
Jiahui Zhang, Nanyan Miao, Liyan Lao, Wen Deng, Jiawen Wang, Xiaofeng Zhu, Yongsheng Huang, Huayue Lin, Wenfeng Zeng, Wei Zhang, Luyuan Tan, Xiaoqing Yuan, Xin Zeng, Jingkun Zhu, Xueman Chen, Erwei Song, Linbin Yang, Yan Nie, Di Huang
Basal-like breast cancer (BLBC) is the most aggressive molecular subtype of breast cancer with worse prognosis and fewer treatment options. The underlying mechanisms upon BLBC transcriptional dysregulation and its upstream transcription factors (TFs) remain unclear. Here, among the hyperactive candidate TFs of BLBC identified by bioinformatic analysis, POU4F1 is uniquely upregulated in BLBC and is associated with poor prognosis. POU4F1 is necessary for the tumor growth and malignant phenotypes of BLBC through regulating G1/S transition by direct binding at the promoter of CDK2 and CCND1...
March 16, 2024: Advanced Science (Weinheim, Baden-Wurttemberg, Germany)
https://read.qxmd.com/read/38491805/rspo2-associated-mitochondrial-metabolism-defines-molecular-subtypes-with-distinct-clinical-and-immune-features-in-esophageal-cancer
#26
JOURNAL ARTICLE
Quanzhou Peng, Tianfeng Cao, Xue Yang, Zhujia Ye, Jun Wang, Shang Chen, Yanqi Yu, Yingdian Yu, Wenyuan Xue, Zhiwei Chen, Jianbing Fan
BACKGROUND: Esophageal cancer is a highly aggressive malignancy with limited treatment options and poor prognosis. The identification of novel molecular subtypes and therapeutic targets is crucial for improving clinical outcomes. METHOD: In this study, we investigated the role of R-spondin 2 (RSPO2) in esophageal cancer and its association with mitochondrial metabolism. Using bioinformatics analysis of publicly available datasets, we identified a panel of RSPO2-related mitochondrial metabolism genes and their expression patterns in esophageal cancer...
March 16, 2024: Environmental Toxicology
https://read.qxmd.com/read/38491545/m6a-methylation-modification-and-immune-infiltration-analysis-in-osteonecrosis-of-the-femoral-head
#27
JOURNAL ARTICLE
Weihua Fang, Peng Peng, Kun Lin, Fangjun Xiao, Wei He, Mincong He, Qiushi Wei
Osteonecrosis of the femoral head (ONFH) is a elaborate hip disease characterized by collapse of femoral head and osteoarthritis. RNA N6-methyladenosine (m6A) plays a crucial role in a lot of biological processes within eukaryotic cells. However, the role of m6A in the regulation of ONFH remains unclear. In this study, we identified the m6A regulators in ONFH and performed subtype classification. We identified 7 significantly differentially expressed m6A regulators through the analysis of differences between ONFH and normal samples in the Gene Expression Omnibus (GEO) database...
March 15, 2024: Journal of Orthopaedic Surgery and Research
https://read.qxmd.com/read/38491529/oralexplorer-a-web-server-for-exploring-the-mechanisms-of-oral-inflammatory-diseases
#28
JOURNAL ARTICLE
Weiyin Lin, Hong Yang, Jiayu Lin, Xia Yang, Zhihao Liao, Yifan Zheng, Peng Luo, Chufeng Liu
BACKGROUND: Oral inflammatory diseases are localized infectious diseases primarily caused by oral pathogens with the potential for serious systemic complications. However, publicly available datasets for these diseases are underutilized. To address this issue, a web tool called OralExplorer was developed. This tool integrates the available data and provides comprehensive online bioinformatic analysis. METHODS: Human oral inflammatory disease-related datasets were obtained from the GEO database and normalized using a standardized process...
March 15, 2024: Journal of Translational Medicine
https://read.qxmd.com/read/38491426/genome-wide-identification-and-in-silico-characterization-of-major-rnai-gene-families-in-date-palm-phoenix-dactylifera
#29
JOURNAL ARTICLE
Darun Naim, Asif Ahsan, Ahmed Imtiaj, Nurul Haque Mollah
BACKGROUND: Dates contain various minerals that are essential for good health. The major RNA interference (RNAi) gene families play a vital role in plant growth and development by controlling the expression of protein-coding genes against different biotic and abiotic stresses. However, these gene families for date palm are not yet studied. Therefore, this study has explored major RNAi genes and their characteristics in date palm. RESULTS: We have identified 4 PdDCLs, 7 PdAGOs, and 3 PdRDRs as RNAi proteins from the date palm genome by using AtRNAi genes as query sequences in BLASTp search...
March 15, 2024: BMC genomic data
https://read.qxmd.com/read/38491365/neuronbridge-an-intuitive-web-application-for-neuronal-morphology-search-across-large-data-sets
#30
JOURNAL ARTICLE
Jody Clements, Cristian Goina, Philip M Hubbard, Takashi Kawase, Donald J Olbris, Hideo Otsuna, Robert Svirskas, Konrad Rokicki
BACKGROUND: Neuroscience research in Drosophila is benefiting from large-scale connectomics efforts using electron microscopy (EM) to reveal all the neurons in a brain and their connections. To exploit this knowledge base, researchers relate a connectome's structure to neuronal function, often by studying individual neuron cell types. Vast libraries of fly driver lines expressing fluorescent reporter genes in sets of neurons have been created and imaged using confocal light microscopy (LM), enabling the targeting of neurons for experimentation...
March 15, 2024: BMC Bioinformatics
https://read.qxmd.com/read/38491348/the-m-6-a-modification-mediated-lncrna-pou6f2-as1-reprograms-fatty-acid-metabolism-and-facilitates-the-growth-of-colorectal-cancer-via-upregulation-of-fasn
#31
JOURNAL ARTICLE
Tao Jiang, Junwen Qi, Zhenyu Xue, Bowen Liu, Jianquan Liu, Qihang Hu, Yuqiu Li, Jing Ren, Hu Song, Yixin Xu, Teng Xu, Ruizhi Fan, Jun Song
BACKGROUND: Long noncoding RNAs (lncRNAs) have emerged as key players in tumorigenesis and tumour progression. However, the biological functions and potential mechanisms of lncRNAs in colorectal cancer (CRC) are unclear. METHODS: The novel lncRNA POU6F2-AS1 was identified through bioinformatics analysis, and its expression in CRC patients was verified via qRT-PCR and FISH. In vitro and in vivo experiments, such as BODIPY staining, Oil Red O staining, triglyceride (TAG) assays, and liquid chromatography mass spectrometry (LC-MS) were subsequently performed with CRC specimens and cells to determine the clinical significance, and functional roles of POU6F2-AS1...
March 16, 2024: Molecular Cancer
https://read.qxmd.com/read/38491298/current-data-processing-methods-and-reporting-standards-for-untargeted-analysis-of-volatile-organic-compounds-using-direct-mass-spectrometry-a-systematic-review
#32
JOURNAL ARTICLE
K Rosenthal, M R Lindley, M A Turner, E Ratcliffe, E Hunsicker
INTRODUCTION: Untargeted direct mass spectrometric analysis of volatile organic compounds has many potential applications across fields such as healthcare and food safety. However, robust data processing protocols must be employed to ensure that research is replicable and practical applications can be realised. User-friendly data processing and statistical tools are becoming increasingly available; however, the use of these tools have neither been analysed, nor are they necessarily suited for every data type...
March 16, 2024: Metabolomics: Official Journal of the Metabolomic Society
https://read.qxmd.com/read/38491248/epdrna-a-model-for-identifying-dna-rna-binding-sites-in-disease-related-proteins
#33
JOURNAL ARTICLE
CanZhuang Sun, YongE Feng
Protein-DNA and protein-RNA interactions are involved in many biological processes and regulate many cellular functions. Moreover, they are related to many human diseases. To understand the molecular mechanism of protein-DNA binding and protein-RNA binding, it is important to identify which residues in the protein sequence bind to DNA and RNA. At present, there are few methods for specifically identifying the binding sites of disease-related protein-DNA and protein-RNA. In this study, so we combined four machine learning algorithms into an ensemble classifier (EPDRNA) to predict DNA and RNA binding sites in disease-related proteins...
March 16, 2024: Protein Journal
https://read.qxmd.com/read/38491247/single-cell-transcriptome-analysis-upon-ecm-remodeling-meningioma-cells
#34
JOURNAL ARTICLE
Wen-Qiang Che, Yu-Jiao Wang, Liu Yang, Hong-Qin Wang, Xiang-Yu Wang, Jun Lyu
Meningiomas are the most common tumours that primarily arise in the central nervous system, but their intratumoural heterogeneity has not yet been thoroughly studied. We aimed to investigate the transcriptome characteristics and biological properties of ECM-remodeling meningioma cells. Single-cell RNA sequencing (ScRNA-seq) data from meningioma samples were acquired and used for analyses. We conducted comprehensive bioinformatics analyses, including screening for differentially expressed genes (DEGs), Kyoto Encyclopedia of Genes and Genomes (KEGG) signaling pathway and Gene Ontology (GO) term enrichment analyses, Gene Set Enrichment Analysis (GSEA), protein-protein interaction (PPI) analysis, and copy number variation (CNV) analysis on single-cell sequencing data from meningiomas...
March 16, 2024: Neurosurgical Review
https://read.qxmd.com/read/38491216/endothelial-cell-derived-extracellular-vesicles-expressing-surface-vcam1-promote-sepsis-related-acute-lung-injury-by-targeting-and-reprogramming-monocytes
#35
JOURNAL ARTICLE
Lu Wang, Ying Tang, Jiajian Tang, Xu Liu, Shuangfeng Zi, Songli Li, Hanbing Chen, Airan Liu, Wei Huang, Jianfeng Xie, Ling Liu, Jie Chao, Haibo Qiu
Acute lung injury (ALI)/acute respiratory distress syndrome (ARDS) is a common life-threatening syndrome with no effective pharmacotherapy. Sepsis-related ARDS is the main type of ARDS and is more fatal than other types. Extracellular vesicles (EVs) are considered novel mediators in the development of inflammatory diseases. Our previous research suggested that endothelial cell-derived EVs (EC-EVs) play a crucial role in ALI/ARDS development, but the mechanism remains largely unknown. Here, we demonstrated that the number of circulating EC-EVs was increased in sepsis, exacerbating lung injury by targeting monocytes and reprogramming them towards proinflammatory macrophages...
March 2024: Journal of Extracellular Vesicles
https://read.qxmd.com/read/38491196/the-antagonistic-effect-of-fto-on-mettl14-promotes-akt3-m-6-a-demethylation-and-the-progression-of-esophageal-cancer
#36
JOURNAL ARTICLE
Ran Wei, Fangfang Zhao, Lingsuo Kong, Youguang Pu, Yuanhai Li, Chunbao Zang
BACKGROUND: As the most abundant modification in eukaryotic messenger RNAs (mRNAs), N6 -methyladenosine (m6 A) plays vital roles in many biological processes. METHODS: Methylated RNA immunoprecipitation sequencing (MeRIP-seq) and transcriptomic RNA sequencing (RNA-seq) were used to screen for m6 A targets in esophageal cancer cells and patients. The role of m6 A RNA methylase in esophageal cancer was also analyzed using bioinformatics. In vitro and in vivo experiments were used to analyze gene expression and function...
March 15, 2024: Journal of Cancer Research and Clinical Oncology
https://read.qxmd.com/read/38491135/correlation-between-the-spread-of-imp-producing-bacteria-and-the-promoter-strength-of-bla-imp-genes
#37
JOURNAL ARTICLE
Yuta Kikuchi, Mariko Yoshida, Asaomi Kuwae, Yukihiro Asami, Yuki Inahashi, Akio Abe
The first report of transmissible carbapenem resistance encoded by blaIMP-1 was discovered in Pseudomonas aeruginosa GN17203 in 1988, and blaIMP-1 has since been detected in other bacteria, including Enterobacterales. Currently, many variants of blaIMPs exist, and point mutations in the blaIMP promoter have been shown to alter promoter strength. For example, the promoter (Pc) of blaIMP-1 , first reported in P. aeruginosa GN17203, was a weak promoter (PcW) with low-level expression intensity. This study investigates whether point mutations in the promoter region have helped to create strong promoters under antimicrobial selection pressure...
March 15, 2024: Journal of Antibiotics
https://read.qxmd.com/read/38491124/identification-of-hedyotis-diffusa-willd-specific-mrna-mirna-lncrna-network-in-rheumatoid-arthritis-based-on-network-pharmacology-bioinformatics-analysis-and-experimental-verification
#38
JOURNAL ARTICLE
Jing Jiang, Meng Huang, Si-Si Zhang, Yong-Gang Wu, Xiao-Long Li, Hui Deng, Xin-Yu Qili, Jian-Lin Chen, Yao Meng, Wen-Kui Sun
Hedyotis diffusa Willd (HDW) possesses heat-clearing, detoxification, anti-cancer, and anti-inflammatory properties. However, its effects on rheumatoid arthritis (RA) remain under-researched. In this study, we identified potential targets of HDW and collected differentially expressed genes of RA from the GEO dataset GSE77298, leading to the construction of a drug-component-target-disease regulatory network. The intersecting genes underwent GO and KEGG analysis. A PPI protein interaction network was established in the STRING database...
March 15, 2024: Scientific Reports
https://read.qxmd.com/read/38491115/a-novel-hantavirus-identified-in-bats-carollia-perspicillata-in-brazil
#39
JOURNAL ARTICLE
Mike Barbosa Dos Santos, Nádia Koide Albuquerque, Sandro Patroca da Silva, Fábio Silva da Silva, Daniel Damous Dias, Samira Brito Mendes, Taciana Fernandes Souza Barbosa Coelho, Maria Claudene Barros, Ana Cecília Ribeiro Cruz
Bats play an essential role in maintaining ecosystems. Their unique characteristics increase the likelihood of interactions with various species, making them a potential source for the emergence and spread of infectious diseases. Hantaviruses are continuously expanding their range of hosts. This study presents the identification of a partial genome associated with Hantavirus in samples collected from neotropical bats. We conducted a metagenomic study using samples from Carollia perspicillata in Maranhão, Brazil...
March 15, 2024: Scientific Reports
https://read.qxmd.com/read/38491080/effect-of-radiotherapy-on-head-and-neck-cancer-tissues-in-patients-receiving-radiotherapy-a-bioinformatics-analysis-based-study
#40
JOURNAL ARTICLE
Zhenjie Guan, Jie Liu, Lian Zheng
Radiotherapy is pivotal in treating head and neck cancers including nasopharyngeal, tongue, hypopharyngeal, larynx, maxillary sinus, parotid gland, and oral cancers. It holds the potential for curative effects and finds application in conjunction with chemotherapy, either as a radical method to preserve organ function or as an adjuvant postoperative treatment. We used bioinformatics analysis to investigate the effects of radiotherapy on head and neck cancer tissues in patients who had received radiotherapy...
March 15, 2024: Scientific Reports
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