Identification of Potential miRNA-mRNA Regulatory Network Contributing to Parkinson’s Disease by Xi Yin, Miao Wang, Wei Wang, Tong Chen, Ge Song, Yixuan Niu, Ziying Jiang, Zhongbao Gao, Zhenfu Wang

“…Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis were then conducted by Database for Annotation, Visualization and Integrated Discovery (DAVID) and Metascape analytic tools. …”
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Polymorphisms and dental age in non-syndromic cleft lip and palate: a cross-sectional study by Gabriela Fonseca-Souza, Lhorrany Alves-Souza, Maria Angélica Hueb de Menezes-Oliveira, Nikolaos Daratsianos, Svenja Beisel-Memmert, Christian Kirschneck, Rafaela Scariot, Juliana Feltrin-Souza, Erika Calvano Küchler

“…DA was evaluated by calibrated examiners (kappa > 0.80) using the method proposed by Demirjian et al. (1973). Genomic DNA was extracted from buccal cells, and SNPs in Epidermal Growth Factor (EGF) – rs4444903 and rs2237051, Epidermal Growth Factor Receptor (EGFR) – rs2227983 –, Transforming Growth Factor Beta 1 (TGFB1) – rs1800470 and rs4803455 –, and Transforming Growth Factor Beta Receptor 2 (TGFBR2) – rs3087465 – were genotyped by real-time polymerase chain reactions using the TaqMan assay. …”
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A dataset of Antarctic ecosystems in ice-free lands: classification, descriptions, and maps by Anikó B. Tóth, Aleks Terauds, Steven L. Chown, Kevin A. Hughes, Peter Convey, Dominic A. Hodgson, Don A. Cowan, John Gibson, Rachel I. Leihy, Nicholas J. Murray, Sharon A. Robinson, Justine D. Shaw, Jonathan S. Stark, Mark I. Stevens, John van den Hoff, Jane Wasley, David A. Keith

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Identification and Analysis of Potential Immune-Related Biomarkers in Endometriosis by Yanan He, Jixin Li, Yanjun Qu, Liyuan Sun, Xibo Zhao, Han Wu, Guangmei Zhang

“…Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses were performed on the DETFs and DEIRGs. …”
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Plant-nanoparticles enhance anti-PD-L1 efficacy by shaping human commensal microbiota metabolites by Yun Teng, Chao Luo, Xiaolan Qiu, Jingyao Mu, Mukesh K. Sriwastva, Qingbo Xu, Minmin Liu, Xin Hu, Fangyi Xu, Lifeng Zhang, Juw Won Park, Jae Yeon Hwang, Maiying Kong, Zhanxu Liu, Xiang Zhang, Raobo Xu, Jun Yan, Michael L. Merchant, Craig J. McClain, Huang-Ge Zhang

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Effects of Negative Pressure Wound Therapy on Levels of Angiopoetin-2 and Other Selected Circulating Signaling Molecules in Patients with Diabetic Foot Ulcer by Jerzy Hohendorff, Anna Drozdz, Sebastian Borys, Agnieszka H. Ludwig-Slomczynska, Beata Kiec-Wilk, Ewa L. Stepien, Maciej T. Malecki

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Transcriptome Analysis of Effect of Cordyceps militaris Aqueous Extract in Human Gastric Cancer Cell BGC-823 on Different RCD Pathways by Mingqi CUI, Kaiwen YU, Yang SONG, Fangxu XU, Shenghou WANG, Ze WANG

“…Transcriptome analysis revealed significant differentially expressed genes (DEGs) and their Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment, resulting in the identification of 10 hub genes involved in the apoptosis, autophagy, necroptosis, and ferroptosis signaling pathways. …”
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Brief Report: Not Created Equal: Survival Differences by KRAS Mutation Subtype in NSCLC Treated With Immunotherapy by Lova Sun, MD, MSCE, Yunyun Zhou, PhD, Elizabeth A. Handorf, PhD, Hossein Borghaei, DO, Jessica Bauman, MD, Charu Aggarwal, MD

“…Methods: Patients with advanced nonsquamous NSCLC who initiated first-line ICI-based therapy from 2016 to 2021 and had known PD-L1 expression and comprehensive genomic profiling including KRAS, STK11, KEAP1, and TP53 were included. …”
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Comparison of diet and exercise on cardiometabolic factors in young adults with overweight/obesity: multiomics analysis and gut microbiota prediction, a randomized controlled trial by Zongyu Lin, Tianze Li, Fenglian Huang, Miao Wu, Lewei Zhu, Yueqin Zhou, Ying‐An Ming, Zhijun Lu, Wei Peng, Fei Gao, Yanna Zhu

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Induced Defense in Ryegrass–Epichloë Symbiosis Against <i>Listronotus bonariensis</i>: Impact on Peramine Levels and Pest Performance by Manuel Chacón-Fuentes, Gunnary León-Finalé, Marcelo Lizama, Gastón Gutiérrez-Gamboa, Daniel Martínez-Cisterna, Andrés Quiroz, Leonardo Bardehle

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Genetic trends and common BRCA1/2 pathogenic sequence variants in black African and Indian breast cancer patients presenting at Inkosi Albert Luthuli Central Hospital, KwaZulu-Nata... by M Makhetha, C Aldous, N Chabilal

“…We identified 30 pathogenic BRCA1/2 sequence variants, four large genomic rearrangements and 13 variants of unknown significance. …”
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Studying breast cancer lung metastasis using a multi-compartment microfluidic device with a mimetic tumor-stroma interaction model by Bahareh Zarin, Laleh Rafiee, Sorosh Abdollahi, Maryam Vatani, Mohsen Hassani, Amir Sanati-Nezhad, Shaghayegh Haghjooy Javanmard

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Mendelian Randomization Reveals Potential Causal Relationships Between DNA Damage Repair-Related Genes and Inflammatory Bowel Disease by Zhihao Qi, Quan Li, Shuhua Yang, Chun Fu, Burong Hu

“…DNA damage repair (DDR) plays a key role in maintaining genomic stability and developing inflammatory bowel disease (IBD). …”
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The landscape of alternative polyadenylation during EMT and its regulation by the RNA-binding protein Quaking by Daniel P. Neumann, Katherine A. Pillman, B. Kate Dredge, Andrew G. Bert, Caroline A. Phillips, Rachael Lumb, Yesha Ramani, Cameron P. Bracken, Brett G. Hollier, Luke A. Selth, Traude H. Beilharz, Gregory J. Goodall, Philip A. Gregory

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Involvement of Cholesterol Metabolic Pathways in Recovery from Noise-Induced Hearing Loss by Na Sai, Xi Shi, Yan Zhang, Qing-qing Jiang, Fei Ji, Shuo-long Yuan, Wei Sun, Wei-Wei Guo, Shi-Ming Yang, Wei-Ju Han

“…Both gene ontology and Kyoto Encyclopedia of Genes and Genomes (KEGG) database analyses showed that immune and metabolic pathways were prominently involved during the impairment stage of acute hearing loss. …”
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Identification and validation of the important role of KIF11 in the development and progression of endometrial cancer by Biying Wang, Lunmin Bao, Xiaoduo Li, Guang Sun, Wu Yang, Nanzi Xie, Ling Lei, Wei Chen, Hailong Zhang, Man Chen, Xing Zhao, Xiufang Wan, Rui Yuan, Hongmei Jiang

“…Functional enrichment analysis of the DEGs was conducted using Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses. DEGs were further screened for hub genes through protein–protein interaction (PPI) network analysis and machine learning. …”
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Exploration of the mechanism of Lithospermum erythrorhizon oil in treating atopic dermatitis based on network pharmacology and experimental validation of the PI3K-Akt pathway regul... by Weisheng Hu, Yinlan Wang, Yingjie Zhou, Junbao Shi, Zengyan Li, Xiaoling Jiang, Qinyuan Wu, Changming Zhong, Huilan Weng, Sijie Ouyang, Yuan Jing, Xianxiang Cai, Mingda Ye, Ning Huang

“…A protein-protein interaction (PPI) network was built using STRING, and functional analysis Gene Ontology (GO) and pathway enrichment Kyoto Encyclopedia of Genes and Genomes (KEGG) were performed on Metascape. A Gene-miRNA regulatory network was constructed on miRTarBase and NetworkAnalyst, with miRNA functions annotated by miEAA. …”
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Targeted detection of endogenous LINE-1 proteins and ORF2p interactions by Mathias I. Nielsen, Justina C. Wolters, Omar G. Rosas Bringas, Hua Jiang, Luciano H. Di Stefano, Mehrnoosh Oghbaie, Samira Hozeifi, Mats J. Nitert, Alienke van Pijkeren, Marieke Smit, Lars ter Morsche, Apostolos Mourtzinos, Vikram Deshpande, Martin S. Taylor, Brian T. Chait, John LaCava

“…Instead, assays for ORF2p have been limited to ectopic L1 ORF over-expression contexts and to indirect detection of endogenous ORF2p enzymatic activity, such as by the sequencing of de novo genomic insertions. Immunoassays for endogenous ORF2p have been problematic, producing apparent false positives due to cross-reactivities, and shotgun MS has not yielded reliable evidence of ORF2p peptides in biological samples. …”
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Correlation analysis of the impact of Clonorchis sinensis juvenile on gut microbiota and transcriptome in mice by Xueling Deng, Shitao Li, Yuhong Wu, Jiali Yao, Wei Hou, Jiangyao Zheng, Boying Liang, Xiaole Liang, Qiping Hu, Zhanshuai Wu, Zeli Tang

“…Kyoto Encyclopedia of Genes and Genomes pathway analysis further indicated involvement in circadian rhythm, as well as various detoxification and metabolic-related pathways (e.g., glutathione metabolism and glycolysis/gluconeogenesis). …”
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Unraveling the genetic spectrum of inherited deaf-blindness in Portugal by Telma Machado, Telmo Cortinhal, Ana Luísa Carvalho, Francisco Teixeira-Marques, Rufino Silva, Joaquim Murta, João Pedro Marques

“…Genetic variants were classified according to the American College of Medical Genetics and Genomics; only likely pathogenic or pathogenic variants were considered relevant for solved cases. …”
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