Different lysine-to-methionine ratios in a low-protein diet affect the microbiome and metabolome, influencing the jejunal barrier function in Tibetan sheep by Fengshuo Zhang, Zhenling Wu, Yu Zhang, Quyangangmao Su, Kaina Zhu, Xuan Chen, Shengzhen Hou, Linsheng Gui

“…Several differential metabolites, including beta-alanine, pantothenate, pantothenic acid, phosphoenolpyruvate, cysteine, adenosine 5′-diphosphate, isodeoxycholic acid, glutamate conjugated cholic acid, and 3-dehydrocholic acid, were significantly increased in the LP-L group (p < 0.05). The functional analysis based on the Kyoto Encyclopedia of Genes and Genomes (KEGG) annotations indicated that these metabolites were mainly involved in pantothenate and CoA biosynthesis, ferroptosis, and the tricarboxylic acid cycle. …”
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Characterization of microbial communities in flavors and fragrances during storage by Yingjie Feng, Tingting Zhang, Jinchu Yang, Wenzhao Liu, Yongfeng Yang, Jihong Huang, Shen Huang, Zongcan Yang, Qianjin Liu, Wenchao Zheng, Qing Zhou, Qing Zhou

“…In addition, the bacterial species Oceanobacillus sojae and Niallia nealsonii showed significant increases in relative abundance, suggesting that bacteria were one of the key contributors to the spoilage of flavors and fragrances. Functional analysis based on the Kyoto Encyclopedia of Genes and Genomes (KEGG) database indicated a shift in metabolic pathways within the microbial community, with heightened metabolic activity correlating with spoilage. …”
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Human-genome single nucleotide polymorphisms affecting transcription factor binding and their role in pathogenesis by E. V. Antontseva, A. O. Degtyareva, E. E. Korbolina, I. S. Damarov, T. I. Merkulova

“…In this regard, the functional analysis of SNPs annotated in the GWAS catalog, both at the genome-wide level and at the level of individual SNPs, became especially relevant in recent years. …”
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Unveiling <i>DENND2D</i> as a Novel Prognostic Biomarker for Prostate Cancer Recurrence: From Gene to Prognosis by Chi-Fen Chang, Lih-Chyang Chen, Yei-Tsung Chen, Chao-Yuan Huang, Chia-Cheng Yu, Victor C. Lin, Te-Ling Lu, Shu-Pin Huang, Bo-Ying Bao

“…<b>Results:</b> Multivariate Cox regression analyses identified <i>DENND2D</i> rs610261 G>A as significantly associated with improved BCR-free survival in both cohorts (adjusted hazard ratio = 0.39, 95% confidence interval = 0.23–0.66, <i>p</i> = 0.001). Functional analysis revealed rs610261’s regulatory potential, with the protective A allele correlating with increased <i>DENND2D</i> expression in various human tissues. …”
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Model Evaluasi Usability Menggunakan Confirmatory Factor Analysis pada KRS Online by Endah Ratna Arumi, Pristi Sukmasetya, Agus Setiawan

“…Abstract Nowadays, the development of computer software systems is not just a functional analysis. At this time, the software interface has begun to become a focus in software development. …”
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Exploring the Mechanism of Skeletal Muscle in a Tacrolimus-Induced Posttransplantation Diabetes Mellitus Model on Gene Expression Profiles by Chenlei Zheng, Cheng Wang, Tan Zhang, Ding Li, Xiao-feng Ni, Jian-Hu Lin, Linxiao Sun, Bicheng Chen

“…The study identified 275 DEGs that may be responsible for insulin resistance and the progression of PTDM, including 86 upregulated genes and 199 downregulated genes. GO and KEGG functional analysis of the DEGs showed a significant correlation between PTDM and muscle development. …”
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A new signature associated with anoikis predicts the outcome and immune infiltration in nasopharyngeal carcinoma by Yonglin Luo, Wenyang Wei, Yaxuan Huang, Jun Li, Weiling Qin, Quanxiang Hao, Jiemei Ye, Zhe Zhang, Yushan Liang, Xue Xiao, Yonglin Cai

“…The low-risk score group exhibited features indicative of early clinical stage, immune activation, high immune checkpoint gene's expression, and low Epstein-Barr virus gene's expression. Functional analysis revealed enrichment of immune-related pathways in the low-risk group. …”
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Altered immune surveillance of B and T cells in patients with persistent residual lung abnormalities 12 months after severe COVID-19 by Julio Flores-Gonzalez, Ivette Buendia-Roldan, Fernanda Téllez-Quijada, Carlos Peña-Bates, Lucero A. Ramón-Luing, Armando Castorena-Maldonado, Ramcés Falfán-Valencia, Gloria Pérez-Rubio, Moisés Selman, Leslie Chavez-Galan, Leslie Chávez-Galán

“…Plasma or supernatant levels of IFN-g, IL-4, IL-10, IgM, and IgG were assessed, and 10 patients (5 FRG, 5 PLAG) were randomly selected for detailed immune cell phenotyping and functional analysis of peripheral blood mononuclear cells using flow cytometry. …”
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Genome-Wide Profiling of Human Papillomavirus DNA Integration into Human Genome and Its Influence on PD-L1 Expression in Chinese Uygur Cervical Cancer Women by Feng Yang-chun, Wang Sen-yu, Zhang Yuan, Huang Yan-chun

“…The result of GO functional analysis showed that binding molecular function and cellular process biological process were the main ways to influence the cell biological behavior of HPV gene integration. …”
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Evaluation of Panicle Exsertion and Identification of QTL for Long Panicle Neck in Single-segment Substitution Lines of Wild Rice by Jiamei MOU, Chengxia LI, Rui TANG, Yanjie LIU, Xingxin DAI, Xuelin FU

“…The results will lay a foundation for both further cloning and functional analysis of panicle exsertion genes from wild rice and molecular breeding for the panicle exsertion in rice.…”
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Exome sequencing reveals a rare damaging variant in GRIN2C in familial late-onset Alzheimer's disease by Elisa Rubino, Maria Italia, Elisa Giorgio, Silvia Boschi, Paola Dimartino, Tommaso Pippucci, Fausto Roveta, Clara Maria Cambria, Gabriella Elia, Andrea Marcinnò, Salvatore Gallone, Ekaterina Rogaeva, Flavia Antonucci, Alfredo Brusco, Fabrizio Gardoni, Innocenzo Rainero

“…Bioinformatics analyses were conducted. Functional analysis was performed using primary neuronal cultures, and the impact of the variant was assessed through immunocytochemistry and electrophysiology. …”
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The SERPINB4 gene mutation identified in twin patients with Crohn’s disease impaires the intestinal epithelial cell functions by Xiao-Mei Ouyang, Jun-Hui Lin, Ying Lin, Xian-Ling Zhao, Ya‐Ni Huo, Lai-Ying Liang, Yong-Dong Huang, Gui-Jing Xie, Peng Mi, Zhen-Yu Ye, Bayasi Guleng

“…The single-nucleotide difference in the SERPINB4 gene, which was unique to the twin patients with CD, led to the substitution of lysine by a glutamic acid residue. Functional analysis indicated that this mutation of SERPINB4 inhibited the proliferation, colony formation, wound healing, and migration of intestinal epithelial cells (IECs). …”
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The transcriptional analysis of pepper shed light on a proviral role of light-harvesting chlorophyll a/b binding protein 13 during infection of pepper mild mottle virus by Weihong Lin, Shugen Zhang, Hao Zhang, Xiaomei Deng, Tong Jiang, Xifeng Chen, Laihua Dong, Qin Yan, Lianyi Zang, Yongping Xing, Zhenquan Wang, Qin Zhang, Kaitong Du, Huolin Shen, Junmin Zhang, Tao Zhou

“…Notably, the expression level of the chlorophyll a-b binding protein 13 (CAB13) was significantly up-regulated in resistant line 21C385 following PMMoV infection. Functional analysis through silencing of CAB13 in pepper and Nicotiana benthamiana demonstrated a reduction in PMMoV accumulation, suggesting that CAB13 plays a positive role in facilitating PMMoV infection in pepper plants. …”
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Lnc-EST885 promotes hepatocellular carcinoma metastasis through PI3K / AKT pathway by interaction with TRAF4 by Shaoliang Zhu, Gang Wang, Yuxuan Zhang, Mengjie Zou, Zhi Li, Shenhong Qu, Xiaosu Zou, Wenqian Nong, Weiwei Miao, Qicong Chen, Juanmei Mo, Huibing Chen, Lequn Li, Xiaofeng Dong, Honglin Luo

“…Methods: Cell experiments including FISH, western blot, flow cytometry and functional analysis were used to elucidate the effects of lnc-EST885 on cell proliferation, apoptosis, migration and EMT processes. …”
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Identification and preliminary validation of biomarkers associated with mitochondrial and programmed cell death in pre-eclampsia by Rong Lin, Rong Lin, XiaoYing Weng, XiaoYing Weng, Liang Lin, Liang Lin, XuYang Hu, XuYang Hu, ZhiYan Liu, ZhiYan Liu, Jing Zheng, Jing Zheng, FenFang Shen, FenFang Shen, Rui Li, Rui Li

“…Clinical validation was conducted via real-time quantitative polymerase chain reaction (RT-qPCR), immunofluorescence, and Western blot.ResultsFour genes [solute carrier family 25 member 5 (SLC25A5), acyl-CoA synthetase family member 2 (ACSF2), mitochondrial fission factor (MFF), and phorbol-12-myristate-13-acetate–induced protein 1 (PMAIP1)] were identified as biomarkers distinguishing PE from normal controls. Functional analysis indicated their involvement in various biological pathways. …”
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OsLAP3/OsSTRL2, encoding a rice strictosidine synthase, is required for anther cuticle formation and pollen exine patterning in rice by Dai-bo Chen, Ran Zhou, Ran Zhou, Hui-min Wang, Pei-pei Zhang, Zheng-fu Yang, Zheng-fu Yang, Dan-dan Xuan, Ying-xin Zhang, Xiao-deng Zhan, Li-yong Cao, Li-yong Cao, Shi-hua Cheng, Lian-ping Sun, Lian-ping Sun

“…Map-based cloning revealed that OsLAP3 is a new allele of the strictosidine synthase-like gene, OsSTRL2. Functional analysis, including complementation and CRISPR/Cas9-based gene editing, confirmed that the 2-nucleotide deletion in the OsLAP3 is responsible for the male sterility phenotype. …”
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Whole blood transcriptome profiles of trypanotolerant and trypanosusceptible cattle highlight a differential modulation of metabolism and immune response during infection by Trypan... by Peylhard, Moana, Berthier, David, Dayo, Guiguigbaza-Kossigan, Chantal, Isabelle, Sylla, Souleymane, Nidelet, Sabine, Dubois, Emeric, Martin, Guillaume, Sempéré, Guilhem, Flori, Laurence, Thévenon, Sophie

“…As expected, infection had a major impact on cattle blood transcriptome regardless of the breed. The functional analysis of differentially expressed genes over time in each breed confirmed an early activation of the innate immune response, followed by an activation of the humoral response and an inhibition of T cell functions at the chronic stage of infection. …”
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Preclinical Efficacy and Proteomic Prediction of Molecular Targets for s-cal14.1b and s-cal14.2b Conotoxins with Antitumor Capacity in Xenografts of Malignant Pleural Mesothelioma by Angélica Luna-Nophal, Fernando Díaz-Castillo, Vanessa Izquierdo-Sánchez, Jesús B. Velázquez-Fernández, Mario Orozco-Morales, Luis Lara-Mejía, Johana Bernáldez-Sarabia, Noemí Sánchez-Campos, Oscar Arrieta, José Díaz-Chávez, Jorge-Ismael Castañeda-Sánchez, Alexei-Fedorovish Licea-Navarro, Saé Muñiz-Hernández

“…The in silico protein functional analysis showed modifications in the biological pathways associated with carcinogenesis. …”
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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. …”
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New proposal for a multimodal imaging approach for the subclinical detection of hydroxychloroquine-induced retinal toxicity in patients with systemic lupus erythematosus by Ricard Cervera, Alfredo Adan, Gerard Espinosa, Jose Rios, Olga Araujo, José Hernández-Rodríguez, Laura Pelegrín, Ricardo P Casaroli-Marano, Halbert Hernández-Negrín, Marc Figueras-Roca, Vanesa Budi, Montse Morató

“…The proportion of abnormal results was 24% for both en face OCT and en face OCTA. Regarding functional analysis, VF was less specific than mfERG in detecting subclinical retinal toxicity (VF specificity 47.5%). …”
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