Machine Learning Enabled Prediction of Biologically Relevant Gene Expression Using CT‐Based Radiomic Features in Non‐Small Cell Lung Cancer by Shrey S. Sukhadia, Christoph Sadée, Olivier Gevaert, Shivashankar H. Nagaraj

“…Methods In a retrospective study of two NSCLC patient cohorts separated by 5 years, we performed a radiogenomic analysis of previously disseminated data from 2018 (n = 116) and newly acquired data from 2023 (n = 44) using RNA sequencing and lung CT images. Combining the data from two cohorts post binarization (of gene expression) or batch normalization (of radiomic features) in each cohort proved to be a better approach as compared to training the model on one cohort and validating on the other. …”
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Inulin Reduces Kidney Damage in Type 2 Diabetic Mice by Decreasing Inflammation and Serum Metabolomics by Jiayuan He, Xiang Li, Man Yan, Xinsheng Chen, Chang Sun, Jiajun Tan, Yinsheng Song, Hong Xu, Liang Wu, Zhengnan Yang

“…The administration of inulin not only ameliorated renal injury but also resulted in a reduction in the mRNA expressions of inflammatory factors in the spleen and serum oxidative stress levels, when compared to the DM group. …”
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Heme Oxygenase 1/Peroxisome Proliferator-Activated Receptor Gamma Pathway Protects Intimal Hyperplasia and Mitigates Arteriovenous Fistula Dysfunction by Regulating Oxidative Stres... by Tingfei Xie, Yunpeng Xu, Lecai Ji, Xiaolu Sui, Aisha Zhang, Yanzi Zhang, Jihong Chen

“…AVF model mice were established, and the vascular tissues from the arteriovenous anastomosis site were sent for mRNA sequencing. Differentially expressed mRNAs (DEmRNAs) were screened and subjected to functional analysis. …”
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Exosomes derived from liver failure patients’ plasma stimulated mesenchymal stem cells alleviate acute liver failure by Zhuoran Wang, Jun Ling, Shaoli You, Bing Zhu

“…Methods Untreated exosomes (NC-Exos) and LF-Exos were extracted and characterized by nanoparticle tracking analysis (NTA), transmission electron microscopy (TEM), western blotting, and miRNA sequencing. We then examined the protective effects of LF-Exos on hepatocytes acutely injured by D-galactosamine (D-GalN)/lipopolysaccharide (LPS) co-treatment and on a mouse model of acute liver failure (ALF). …”
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Alternative splicing of modulatory immune receptors in T lymphocytes: a newly identified and targetable mechanism for anticancer immunotherapy by Shay Tzaban, Ori Stern, Elad Zisman, Galit Eisenberg, Galit Eisenberg, Shiri Klein, Shiri Klein, Shoshana Frankenburg, Michal Lotem, Michal Lotem, Michal Lotem

“…Two developments have accelerated the use of AS dynamics for therapeutic interventions: advancements in long-read RNA sequencing and progress in nucleic acid chemical modifications. …”
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Tenidap sodium inhibits secretory non-pancreatic phospholipase A2 synthesis by foetal rat calvarial osteoblasts by W. Pruzanski, B. P. Kennedy, H. van den Bosch, E. Stefanski, M. Wloch, P. Vadas

“…Northern blot analysis showed that TD did not affect the sPLA2 mRNA levels; however, immunoblotting showed a dose-dependent reduction in sPLA2 enzyme. …”
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Integrating single cell analysis and machine learning methods reveals stem cell-related gene S100A10 as an important target for prediction of liver cancer diagnosis and immunothera... by Shenjun Huang, Tingting Tu

“…A thorough understanding of genes associated with stem cells is crucial for improving the diagnostic precision of LIHC and for the advancement of effective immunotherapy approaches.MethodThis research combines single-cell RNA sequencing with machine learning techniques to identify vital stem cell-associated genes that could act as prognostic biomarkers and therapeutic targets for LIHC. …”
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GENDER-SPECIFIC INFLUENCE OF Aу MUTATION ON PROGENY METABOLIC PHENOTYPE, FETAL GROWTH AND PLACENTAL GENE EXPRESSION IN MICE by E. N. Makarova, E. I. Denisova, V. V. Kozhevnikova, A. E. Kuleshova

“…On day 13 of pregnancy, the mRNA levels of the examined genes did not differ in placentas of male and female fetuses in ɑ/ɑ  females. …”
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The Prognostic Model Established by the Differential Expression Genes Based on CD8+ T Cells to Evaluate the Prognosis and the Response to Immunotherapy in Osteosarcoma by Yu Chen, Wei Yan, Hongqing Wang, Zhiliang Ou, Huihong Chen, Zhenhua Huang, Jinlian Yang, Biqiong Liu, Fanjie Ou, Huang Zhang

“…In this study, we obtained the single-cell RNA sequencing datasets of OS patients from public databases and defined 34 cell clusters by dimensional reduction and clustering analysis. …”
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HIF1α-Induced Glycolysis Metabolism Is Essential to the Activation of Inflammatory Macrophages by Ting Wang, Huiying Liu, Guan Lian, Song-Yang Zhang, Xian Wang, Changtao Jiang

“…Further results revealed that macrophage M1 polarization, induced by HIF1α overexpression, was via upregulating the mRNA expression of the genes related to the glycolysis metabolism. …”
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Clostridium butyricum attenuates LPS-induced myocardial injury in septic mice by modulating CD4 + CD25 + FOXP3 + Treg by Jinglin Zhao, Liuli Wu, Rupan Zhang, Mei Yuan, Junchao Huang, Xiongfei Jia, Xiaoqin Mao

“…Intestinal microbiota imbalance plays a crucial role in sepsis regulation. Using 16srRNA technology, we explored how intestinal colonization of Clostridium butyricum over 28 days impacted mice with LPS-induced sepsis. …”
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Gastrointestinal protozoa in pet cats from Anhui province: prevalence and molecular characterization by Hao Zhang, Xing Tong, Zhonghui Ma, Tao Zhang, Feng Wu, Qiong Wu, Congshan Yang, Chunyang Han

“…The evolutionary relationships and genetic characteristics of G. intestinalis based on the GDH gene, Cryptosporidium based on the SSU rRNA gene, and E. bieneusi based on the ITS sequence were assessed: five cases of G. intestinalis were identified, with four belonging to assemblage F and one to zoonotic assemblage B, two Cryptosporidium cases were identified as Cryptosporidium felis, and all eight E. bieneusi cases were identified as belonging to group 1, with three cases being genotype D, three EbpA, and two EbpC.DiscussionAge, neutering status, and deworming were identified as potential risk factors. …”
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Metataxonomic Characterization of Enriched Consortia Derived from Oil Spill-Contaminated Sites in Guimaras, Philippines, Reveals Major Role of Klebsiella sp. in Hydrocarbon Degrada... by Kiara Nicole D. Rodriguez, Russel T. Santos, Michael Joseph M. Nagpala, Rina B. Opulencia

“…The consortia that obtained the highest percent degradation for each of the four hydrocarbons were “B2” (92.34% diesel degraded), “A5” (85.55% hexadecane degraded), “B1” (74.33% hexane degraded), and “B7” (63.38% xylene degraded). Illumina MiSeq 16S rRNA gene amplicon sequencing revealed that the dominant phyla in all consortia are Pseudomonadota (previously Proteobacteria), followed by Bacillota (previously Firmicutes). …”
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Genome-wide identification of high-affinity nitrate transporter 2 (NRT2) gene family under phytohormones and abiotic stresses in alfalfa (Medicago sativa) by Yanyan Luo, Lili Nan

“…Furthermore, we studied the expression patterns of MsNRT2 genes in six tissues based on RNA-sequencing data from the Short Read Archive (SRA) database of NCBI, and the results showed that MsNRT2 genes were widely expressed in six tissues. …”
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Virtual Screening for Potential Inhibitors of NS3 Protein of Zika Virus by Maheswata Sahoo, Lingaraja Jena, Sangeeta Daf, Satish Kumar

“…Zika virus (ZIKV) is a mosquito borne pathogen, belongs to Flaviviridae family having a positive-sense single-stranded RNA genome, currently known for causing large epidemics in Brazil. …”
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Mutation yellow in agouti loci prevents age-related increase of skeletal muscle genes regulating free fatty acids oxidation by Y. V. Piskunova, A. Y. Kazantceva, A. V. Baklanov, N. M. Bazhan

“…C57Bl/6J mice bearing a dominant autosomal mutation Ay (Ay /a mice) and mice of the standard genotype (a/a mice, control) have been studied in three age groups: 10, 15 and 30 weeks. The relative mRNA level of genes was measured by real-time PCR in skeletal muscles (uncoupling protein 3 (Ucp3) and carnitine palmitoyl transferase 1b (Cpt1b) (free fatty acids oxidation), solute carrier family 2 (facilitated glucose transporter), member 4 (Slc2a4) (glucose uptake)), in WAT lipoprotein lipase (Lpl) (triglyceride deposition), hormone-sensitive lipase (Lipe) (lipid mobilization), and Slc2a4 (glucose uptake)), and in BAT: uncoupling protein 1 (Ucp1) (energy expenditure). …”
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RIP140通过抑制SIRT5表达介导心肌细胞能量代谢紊乱 by 陈艳芳, 刘培庆

“…【方法】利用腺病毒感染心肌细胞诱导 RIP140 过表达，利用质粒转染诱导 SIRT5 基因过表达，siRNA 干扰敲低 RIP140、SIRT5表达；qRT-PCR和Western blot检测SIRT5、RIP140的表达变化；qRT-PCR检测线粒体编码基因的表达情况， TMRE染色法评估线粒体膜电位，试剂盒检测细胞耗氧和ATP生成情况。…”
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PD-L1 Expression and CD8+ T Cell Infiltration Predict a Favorable Prognosis in Advanced Gastric Cancer by Yangyang Wang, Chunchao Zhu, Wei Song, Jun Li, Gang Zhao, Hui Cao

“…PD-L1 expression was positively correlated with CD8+ T cell infiltration. Then, PD-L1 and CD8A mRNA expression was analyzed using gastric cancer data from the TCGA database, confirming a positive correlation. …”
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Downregulation of Hlx Closely Related to the Decreased Expressions of T-bet and Runx3 in Patients with Gastric Cancer May Be Associated with a Pathological Event Leading to the Im... by Yan Xu, Jingjing Gao, Zhaoliang Su, Xiaoli Dai, Yazhen Li, Yingzhao Liu, Jianguo Chen, Jia Tong, Yun Zhang, Chaoyang Wu, Dong Zheng, Shengjun Wang, Huaxi Xu

“…In addition, the Runx3 expression was also downregulated with the lower T-bet mRNA level. These results suggested that the decreased Hlx expression was closely associated with T-bet and Runx3 downregulations and may contribute to the development of gastric cancer.…”
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Electroacupuncture-Regulated miR-34a-3p/PDCD6 Axis Promotes Post-Spinal Cord Injury Recovery in Both In Vitro and In Vivo Settings by Lili Ma, Lizhong Ma, Yu Yang, Ting Chen, Limin Wang, Qilong Deng

“…In our study, based on bioinformatics prediction, we found that miR-34a-3p might be an upstream regulator miRNA for PDCD6, which was subsequently validated through combined utilization of the qRT-PCR, western blot, and dual-luciferase reporter system. …”
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