Identification of critical biomarkers and immune landscape patterns in glioma based on multi-database by Hanzhang Yuan, Jingsheng Cheng, Jun Xia, Zeng Yang, Lixin Xu

“…Patients and methods Differentially expressed genes (DEGs) of glioma were downloaded from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) databases. …”
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Collection of microorganisms of ICG SB RAS as a genetic resource for biotechnology by A. V. Bryanskaya, Y. E. Uvarova, A. S. Rozanov, N. M. Slynko, V. N. Shlyakhtun, K. V. Starostin, E. A. Demidov, E. V. Lazareva, O. P. Taran, S. E. Peltek

“…The value of the collection of microorganisms of the FRC ICG SB RAS as a genetic resource for biotechnology and bioengineering is determined not only by the species diversity of its strains, but also by a wide range of their area isolation and by the depth of their characterization using the widest arsenal of both classical and modern methods (including methods of genomics, proteomics, transcriptomics and bioinformatics).…”
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Genetic Association and Expression Correlation between Colony-Stimulating Factor 1 Gene Encoding M-CSF and Adult-Onset Still’s Disease by Yi-Ming Chen, Wei-Ting Hung, Wan-Chun Chang, Chia-Wei Hsieh, Wen-Hung Chung, Joung-Liang Lan, Ning-Rong Gung, Yun-Shien Lee, Der-Yuan Chen, Shuen-Iu Hung

“…To assess the genetic susceptibility of AOSD, we conducted a genome-wide association study (GWAS) on a cohort of 70 AOSD cases and 688 controls following a replication study of 36 cases and 200 controls and meta-analysis. …”
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Oncolytic peptide LTX-315 induces anti-pancreatic cancer immunity by targeting the ATP11B-PD-L1 axis by Meng Wang, Xing Huang, Tingbo Liang, Tianyu Tang, Gang Zhang, Minghao Lu, Zhengtao Hong, Junming Huang, Xiao Zhi

“…Both in-house tissue microarray and open accessed The Cancer Genome Atlas data sets were used to evaluate the clinical relevance in pancreatic cancer prognosis.Results LTX-315 treatment inhibited PD-L1 expression and enhanced lymphocyte infiltration in pancreatic tumors. …”
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First detection and molecular characterization of Jingmen tick virus with a high occurrence in Rhipicephalus (Boophilus) microplus collected from livestock in Cameroon (2024) by Paloma Kiwan, Eva Lopez, Morena Gasparine, Geraldine Piorkowski, Agathe Colmant, Achille Paguem, Stephanie Mvodo, Laurence Thirion, Xavier de Lamballerie, Remi Charrel, Alessandra Falchi

“…Positive JMTV pools were sequenced for partial JMTV-Segment 1 and full genome analyses. Results A total of 622 ticks, organized into 251 pools were collected from 155 cattle and nine sheep. …”
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Exosomes from LPS-Stimulated hDPSCs Activated the Angiogenic Potential of HUVECs In Vitro by Xiangyu Huang, Wei Qiu, Yuhua Pan, Jianjia Li, Zhao Chen, Kaiying Zhang, Yifei Luo, Buling Wu, Wenan Xu

“…Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis was used to estimate the signaling pathways associated with the inflammation-induced angiogenesis process. …”
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Potential biomarkers and immune infiltration linking endometriosis with recurrent pregnancy loss based on bioinformatics and machine learning by Jianhui Chen, Qun Li, Xiaofang Liu, Fang Lin, Yaling Jing, Jiayan Yang, Lianfang Zhao

“…Moreover, immune cell infiltration was estimated using CIBERSORTx, and the Cancer Genome Atlas (TCGA) database was employed to elucidate the role of key genes in endometrial carcinoma (EC).Results26 common differentially expressed genes (DEGs) were screened in both diseases, three of which were identified as common core genes (MAN2A1, PAPSS1, RIBC2) through the combination of WGCNA, PPI network, and machine learning-based feature selection. …”
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Survival outcome prediction of esophageal squamous cell carcinoma patients based on radiomics and mutation signature by Ting Yan, Zhenpeng Yan, Guohui Chen, Songrui Xu, Chenxuan Wu, Qichao Zhou, Guolan Wang, Ying Li, Mengjiu Jia, Xiaofei Zhuang, Jie Yang, Lili Liu, Lu Wang, Qinglu Wu, Bin Wang, Tianyi Yan

“…The mutation signature was constructed based on whole genome sequencing data and found to be significantly associated with the prognosis of patients with ESCC. …”
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Risk of residual/recurrent cervical diseases in HPV-positive women post-conization depends on HPV integration status by Wenyu Lin, Yuxuan Huang, Yan Zhang, Lixiang Huang, Hongning Cai, Guanxiang Huang, Ye Li, Qiaoyu Zhang, Huifeng Xue, Binhua Dong, Pengming Sun

“…HPV integration test was performed using the high-throughput viral integration detection (HIVID), a sensitive method for genome-wide survey of HPV integration breakpoints. …”
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Effect of the gut microbiome in glaucoma risk from the causal perspective by He Chen, Meng Zhou, Zicheng Zhang, Siqi Bao, Jia Qu, Yaxuan Wu, Ronghua Shi

“…However, the causal effect of GM on glaucoma risk remains to be determined.Methods and analysis We conducted two-sample bidirectional Mendelian randomisation (MR) analyses to explore the causal association between GM and glaucoma. Genome-wide association study summary statistics of 196 GM taxa (n=18 340) and glaucoma (18 902 cases and 358 375 controls) were obtained from MiBioGen and FinnGen Consortium. …”
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WNT3A promotes the cementogenic differentiation of dental pulp stem cells through the FOXO1 signaling pathway by Dongmei Cheng, Yang Bao, Xue Wang, Haidong Xiang, Tianyuan Guo, Yong Du, Zhiyong Zhang, Han Guo

“…Pathway enrichment exploration was conducted utilizing gene ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), Gene Set Enrichment Analysis (GSEA), and Metascape tools. …”
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Effectiveness of a Novel Liposomal Methylglyoxal–Tobramycin Formulation in Reducing Biofilm Formation and Bacterial Adhesion by Wed Alluhaim, Manal M. Alkhulaifi, Raghad R. Alzahrani, Bahauddeen M. Alrfaei, Alaa Eldeen B. Yassin, Majed F. Alghoribi, Ahlam M. Alsaadi, Ahmed I. Al-Asmari, Ahmed J. Al-Fahad, Rizwan Ali, Naif M. Alhawiti, Majed A. Halwani

“…<b>Methods:</b> Clinical isolates of <i>Pseudomonas aeruginosa</i> and <i>Klebsiella pneumoniae</i> were characterized using whole-genome sequencing. Liposomes (Lip-MGO-TOB) were formulated using Manuka honey as a surfactant and loaded with MGO and TOB. …”
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Expression of CSTF2 in oral squamous cell carcinoma and its relationship with immune infiltration and poor prognosis by Zumulaiti Aierken, Muertiza Muhetaer, Zhang Lei, Ainiwaerjiang Abudourousuli, Ainiwaerjiang Abudourousuli

“…However, its specific association with patient prognosis and immune cell infiltration in OSCC remains insufficiently understood.MethodsTo assess the expression levels and prognostic implications of CSTF2 in OSCC, comprehensive data were acquired from The Cancer Genome Atlas (TCGA) and subsequently normalized. Immunohistochemical staining of tissue microarrays was performed to analyze CSTF2 expression in the OSCC samples. …”
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Dose-response risks of all-cause, cancer, and cardiovascular disease mortality according to sex-specific cigarette smoking pack-year quantiles by Jieun Hwang, Suyoung Jo, Heewon Kang, Eunsil Cheon, Sung-il Cho

“…Methods The integrated Korean Genome and Epidemiology Study provided data for 209770 individuals who were classified as never, former, or current smokers, based on their current smoking status. …”
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Genotypic and phenotypic characterization of antimicrobial resistance in Salmonella strains isolated from both No-Antibiotics-Ever (NAE) and conventional broiler complexes by Yagya Adhikari, Dianna V. Bourassa, Sabin Poudel, Matthew A. Bailey, Richard J. Buhr, Kenneth S. Macklin

“…ResFinder was used to identify AMR genes from whole genome sequences while the phenotypic resistance of 14 different antibiotics was determined using broth microdilution method. …”
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The potential of the amaranth collection maintained at VIR in the context of global plant breeding and utilization trends by D. V. Sokolova, A. E. Solovieva, A. M. Zaretsky, T. V. Shelenga

“…Despite the great potential of amaranth, little research has been dedicated to the study of its genomics, concentrating mainly on the identification of its species diversity. …”
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Predicting Outcomes in Esophageal Squamous Cell Carcinoma Using scRNA‐Seq and Bulk RNA‐Seq: A Model Development and Validation Study by Jiaqi Zhang, Shunzhe Song, Yuqing Li, Aixia Gong

“…Methods A total of 8, 99, and 140 individuals from The Gene Expression Omnibus database, The Cancer Genome Atlas database, and the Memorial Sloan Kettering Cancer Center, respectively, were encompassed in the investigation. …”
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Intestinal Microbiome Changes in Fecal Microbiota Transplant (FMT) vs. FMT Enriched with Lactobacillus in the Treatment of Recurrent Clostridioides difficile Infection by Elvira Garza-González, Soraya Mendoza-Olazarán, Rayo Morfin-Otero, Andrea Ramírez-Fontes, Patricia Rodríguez-Zulueta, Samantha Flores-Treviño, Paola Bocanegra-Ibarias, Héctor Maldonado-Garza, Adrián Camacho-Ortiz

“…Fecal microbiota transplant by capsules was clinically and genomically similar between traditional FMT and enriched FMT with Lactobacillus spp. …”
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Causal associations between osteoporosis and HBV infection across Asian and European populations: evidence from Mendelian randomization and colocalization analysis by Zhengnan Li, Jiarui Cao, Ke Li, Yixin Wu, Zhanpeng Luo, Rui Cao, Zhiheng Cheng, Zhendong Tian, Yiyang Han, Yuping Lai, Bangqi Wang, Shen Chen

“…The data we utilized were obtained from the genome-wide association studies (GWAS) database. Various MR methods, including inverse variance weighted (IVW), MR Egger, weighted median, simple median and simple mode were employed to estimate the association between HBV infection and osteoporosis. …”
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Proteome‐Wide Mendelian Randomization Identifies Therapeutic Targets for Abdominal Aortic Aneurysm by Ka Zhang, Yuan Liu, Aiqin Mao, Changzhu Li, Li Geng, Hao Kan

“…Genetic associations with AAA were sourced from the AAAgen consortium, a large‐scale genome‐wide association study meta‐analysis involving 37 214 cases and 1 086 107 controls, and the FinnGen study, which included 3869 cases and 381 977 controls. …”
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