Smoking as a causative factor in chronic kidney disease: a two-sample Mendelian randomization study by Yue Yang, Zheng Zhang, Hai-tao Lu, Qian-qian Xu, Li Zhuo, Wen-ge Li

“…This study applied bivariate causal analysis and two-sample Mendelian randomization (MR) methods to examine the association between various smoking behaviors – initiation, cessation, age at initiation, cigarettes smoked per day, and lifetime smoking – and CKD, using genome-wide data. The inverse variance weighted (IVW) method was the primary analytical tool, supported by sensitivity analyses, pleiotropy assessments, and mediation analyses. …”
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Identification and Characterization of the <i>ROP GTPase</i> Gene Family in Strawberry and the Positive Role of <i>FveROP4</i> in Fruit Resistance to Gray Mold by Shuai Zhao, Baode Zhu, Zhijun Zou, Yushan Zhai, Sufeng Liao, Ming Xu, Kunyang Li, Nasir Mehmood, Xiong Liao

“…In this study, we identified 53 <i>ROP</i> genes across the genomes of six Rosaceae species. Based on sequence homology, they were classified into three distinct phylogenetic clades. …”
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Identifiability of mathematical models in medical biology by S. I. Kabanikhin, D. A. Voronov, A. A. Grodz, O. I. Krivorotko

“…Analysis of biological data is a key topic in bioinformatics, computational genomics, molecular modeling and systems biology. The methods covered in this article could reduce the cost of experiments for biological data. …”
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Lysosome and Cytoskeleton Pathways Are Robustly Enriched in the Blood of Septic Patients: A Meta-Analysis of Transcriptomic Data by Jie Ma, Chuanxi Chen, Andreas S. Barth, Chris Cheadle, Xiangdong Guan, Li Gao

“…We identified 6 cohorts consisting of 450 individuals (sepsis = 323, control = 127) providing genome-wide messenger RNA (mRNA) expression data. …”
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Multidisciplinary approach to functional somatic syndromes: study protocol for a population-based prospective cohort study by Hamidreza Roohafza, Harold Snieder, Fatemeh Hadizadeh, Peyman Adibi, Alireza Ani, Ahmad Vaez

“…Human DNA genotyping, microbial amplicon sequencing and urine analysis is under progress for genomics, microbiota and metabolomics profiling, respectively. …”
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Adaptive Evolution Coupled with Retrotransposon Exaptation Allowed for the Generation of a Human-Protein-Specific Coding Gene That Promotes Cancer Cell Proliferation and Metastasis... by Spyros I. Papamichos, Dimitrios Margaritis, Ioannis Kotsianidis

“…Till date whether human genome includes species-specific cancer-related genes that could potentially contribute to a higher cancer susceptibility remains obscure. …”
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The development of a new bread wheat genotype carrying two loci for endosperm softness by A. V. Simonov, A. K. Chistyakova, E. V. Morozova, L. V. Shchukina, A. Börner, T. A. Pshenichnikova

“…In addition, these lines may serve as a genetic model for the study of the functional activity of homoeoallelic genes in the complex polyploid genomes of plants.…”
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Generation of barcoded plasmid libraries for massively parallel analysis of chromatin position effects by M. O. Lebedev, L. A. Yarinich, A. V. Ivankin, A. V. Pindyurin

“…To study this effect in a high-throughput mode and at the genome-wide level, the Thousands of Reporters Integrated in Parallel (TRIP) approach based on the usage of barcoded reporter gene constructs was recently developed. …”
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Simple and Fail-safe Method to Transform Miniprep Escherichia coli Strain K12 Plasmid DNA Into Viable Agrobacterium tumefaciens EHA105 Cells for Plant Genetic Transformation by Beenzu Siamalube, Emmanuel Ehinmitan, Maina Ngotho, Justus Onguso, Steven Runo

“…It enables the introduction of foreign DNA into plant genomes. Conventionally, plant genetic transformation has relied on time-consuming, costly, and technically demanding procedures, such as electroporation and chimeric viruses or biolistic methods, which usually yield variable transformation efficiencies. …”
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Prevalence, Antibiotic Resistance, and Genetic Diversities of Clostridium difficile in Meat Nuggets from Various Sources in Isfahan, Iran by Parvin Ghorbani Filabadi, Ebrahim Rahimi, Amir Shakerian, Zahra Esfandiari

“…A mutation would be the basis for the absence of the tcdC gene in the genome of all isolates.…”
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Expression and prognostic significance of the m6A RNA methylation regulator HNRNPC in HNSCC by Yulin Zhang, Yixu Wang, Jilin Peng, Kun Zhao, Ling Li, Yuan Zhang, Ziyu Zhai, Sijie Yuan, Shichao Li, Shichao Li, Shichao Li, Fanglei Ye, Le Wang

“…BackgroundN6-methyladenosine (m6A) RNA modification is crucial for tumor development and progression; however, which m6A regulators play a pivotal role in head and neck squamous cell carcinoma (HNSCC) remains ambiguous.MethodsUtilizing the Cancer Genome Atlas (TCGA) database, the expression levels of m6A regulators in HNSCC were examined, which led to the identification of heterogeneous nuclear ribonucleoprotein C (HNRNPC) as a key gene. …”
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The Studies of Chlorogenic Acid Antitumor Mechanism by Gene Chip Detection: The Immune Pathway Gene Expression by Tian Yi Kang, Hua Rong Yang, Jie Zhang, Dan Li, Jie Lin, Li Wang, XiaoPing Xu

“…Here, we have utilized a whole mouse genome oligo microarray (4*44K) to analyze gene expression level of female BALB/c mice (implanted with EMT-6 sarcoma cells) after treatment with low, medium, and high-dose CA (5 mg/kg, 10 mg/kg, and 20 mg/kg), docetaxel, interferon, and normal saline separately at 6 time points (3rd, 6th, 9th, 12th, 15th, and 18th days after administration). …”
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An assessment of circulating biomarkers and germline genetic variants in predicting chemotherapy associated mucositis in Ewing sarcoma by Pawan Gulati, Vickyanne Carruthers, Claire Hutton, Chloe Cassidy, Edward B. Amankwatia, Séréna Pascual, Electra Florence, Tsegay G. Gebru, Andrea L. Jorgensen, Alastair Greystoke, Guy Makin, Martin G. McCabe, Daniel B. Hawcutt, Gareth J. Veal, David Jamieson

“…Discussion: Early increases in circulating CK18 levels correlated with grade 3 mucositis. Genome-wide association analysis highlighted genes that may be associated with mucositis pathology, offering insights into biological mechanisms underlying susceptibility.…”
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Rapid detection of FAdV-4 by one-tube RPA-CRISPR/Cas12a assay by Lei Ma, Xueping Wang, Mingliang Zhang, Mengjie Zhu

“…This approach reduced contamination.ResultsThe RPA-CRISPR/Cas12a detection method can identify as few as 10 copies of the genome per reaction, demonstrating 100% sensitivity comparable to that of fluorescence PCR (qPCR). …”
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Transgenic plants as a model for studying еpigenetic regulation of gene expression by T. V. Marenkova, E. V. Deineko

“…The study of this phenomenon revealed dependence of the frequency of gene silencing on the number of integrated copies in the plant genome, the properties of the transgene sequence itself (the presence of duplications, vector sequences, and others), chromosomal position. …”
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Epigenetic Alterations and an Increased Frequency of Micronuclei in Women with Fibromyalgia by Victoria Menzies, Debra E. Lyon, Kellie J. Archer, Qing Zhou, Jenni Brumelle, Kimberly H. Jones, G. Gao, Timothy P. York, Colleen Jackson-Cook

“…To determine if acquired epigenetic/genetic changes are associated with FM, we compared the frequency of spontaneously occurring micronuclei (MN) and genome-wide methylation patterns in women with FM (n=10) to those seen in comparably aged healthy controls (n=42 (MN); n=8 (methylation)). …”
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Identification of Differentially Expressed lncRNAs in a CpG ODN-Activated Macrophage by Ying Zheng, Xi Luo, Zailong Qin, Zhiguang Zhou

“…Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) biological pathway analyses were performed to predict the functions of dysregulated genes. …”
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Transcriptomic-Based Identification of miR-125a Novel Targets in Human Hepatocarcinoma Cells by Ilenia De Leo, Nicola Mosca, Mariaceleste Pezzullo, Danila Valletta, Francesco Manfrevola, Vincenza Grazia Mele, Rosanna Chianese, Aniello Russo, Nicoletta Potenza

“…However, its HCC relevant targets and molecular mechanisms are still largely unknown. Here, a genome-wide perspective of the whole miR-125a targetome has been achieved. …”
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Establishment and characterization of ovarian clear cell carcinoma patient-derived xenografts by Joseph J. Caumanns, Shang Li, Gert J. Meersma, Evelien W. Duiker, Ate G. J. van der Zee, G. Bea A. Wisman, Steven de Jong

“…SNP array and Infinium MethylationEPIC BeadChip array data analysis demonstrated the copy number alterations and DNA methylation signatures of genome-wide and tumor-driver genes in PDXs generally resembled their patients’ tumors. …”
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SCO6564, a novel 3-ketoacyl acyl carrier protein synthase III, contributes in fatty acid synthesis in Streptomyces coelicolor. by Jian-Rong Ma, Jia-Ying Lin, Yuan-Yin Zhang, Yun Chen, Wen-Bing Zhang, Xian-Pu Ni, Yong-Hong Yu

“…In this study, the FabH homolog SCO6564 (named FabH2) was identified in the S. coelicolor genome by BLAST analysis. The expression of fabH2 restored the growth of Ralstonia solanacearum fabH mutant and made the mutant produce small amounts of branched-chain fatty acids. …”
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