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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Characteristic alterations of gut microbiota and metabolites in patients with perianal abscess: a multi-omics analysis by Huangfu Ma, Jingjing Fang, Mengjie Li, Yige Qin, Yanmei Wang, Seong-Gook Kang, Kunlun Huang, Kunlun Huang, Kunlun Huang, Tao Tong, Tao Tong, Tao Tong

“…Non-targeted metabolomics detected 1168 different metabolites between children with PA and HC. Functional analysis of the gut microbiota and KEGG pathway enrichment analysis of differential metabolites between the PA and HC groups corroborated that the pathways of phenylalanine, tyrosine and tryptophan biosynthesis, valine, leucine and isoleucine biosynthesis, and pantothenate and CoA biosynthesis were down-regulated in children with PA, while the pathways of ubiquinone and other terpenoid-quinone biosynthesis, tyrosine metabolism, and tryptophan metabolism were up-regulated in children with PA. …”
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Human induced pluripotent stem cell-derived myotubes to model inclusion body myositis by Judith Cantó-Santos, Laura Valls-Roca, Ester Tobías, Francesc Josep García-García, Mariona Guitart-Mampel, Félix Andújar-Sánchez, Adrià Vilaseca-Capel, Anna Esteve-Codina, Beatriz Martín-Mur, Joan Padrosa, Emma Peruga, Irene Madrigal, Paula Segalés, Carmen García-Ruiz, José Carlos Fernández-Checa, Pedro J. Moreno-Lozano, Albert Selva O’Callaghan, Ana Sevilla, José César Milisenda, Glòria Garrabou

“…We evaluated protein histological findings and the gene expression profile by mRNA-seq, alongside functional analysis of inflammation, degeneration and mitochondrial function. …”
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Distinct gut microbiome characteristics and dynamics in patients with Parkinson’s disease based on the presence of premotor rapid-eye movement sleep behavior disorders by Jae-Yun Lee, Sungyang Jo, Jihyun Lee, Moongwan Choi, Kijeong Kim, Sangjin Lee, Hyun Sik Kim, Jin-Woo Bae, Sun Ju Chung

“…In early-stage PD-RBD(+), Escherichia and Akkermansia, associated with pathogenic biofilm formation and host mucin degradation, respectively, were enriched, which was supported by functional analysis. We discovered that genes of the UDP-GlcNAc synthesis/recycling pathway negatively correlated with biofilm formation; this finding was further validated in a separate cohort. …”
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Transcriptome analysis of jejunal mucosal tissue in breeder hens exposed to acute heat stress by Yongcai Zhu, Satoshi Kubota, Phocharapon Pasri, Sitthipong Rakngam, Supattra Okrathok, Chayanan Pukkung, Shenglin Yang, Sutisa Khempaka

“…Of these, 75 genes including heat shock proteins (HSPs) showed upregulated expression, while 63 genes including a key bile acid transport molecule (SLC10A2) exhibited downregulated expression. Functional analysis through gene ontology classification, pathway mapping via the Kyoto encyclopedia of genes and genomes, and protein interaction networks identified several important regulatory genes in thermal response (HSPA8 and HSPA2), energy homeostasis and fat metabolism (PDK4, PPARA, and CD36), glucose transport (SLC2A5), and cholesterol synthesis pathway (SQLE, CYP51A1, and HSD17B7). …”
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Investigation of high fecundity genes by nanopore sequencing in sheep (Ovis aries) pituitary by Xue Xiao, Zhibin Ji, Tong Wang, Dejie Zhu, Zhonghui Li, Xinming Xu, Fen Li

“…ONT full-length transcriptome sequencing technology was used for mRNA identification, screening, and functional analysis. A total of 7,123 DEGs were found between the two groups of sheep, including 3,551 genes that were upregulated and 3,572 genes that were downregulated in the HP group. …”
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Comprehensive analysis of phagocytosis regulatory genes in bladder cancer: implications for prognosis and immunotherapy by Xueming Ma, Xueming Ma, Xueming Ma, Dongnuan Yao, Dongnuan Yao, Dongnuan Yao, Weitao Yu, Weitao Yu, Weitao Yu, Gongping Wu, Gongping Wu, Gongping Wu, Chengwei Fan, Chengwei Fan, Chengwei Fan, Junqiang Tian, Junqiang Tian, Junqiang Tian

“…A variety of algorithms and analysis techniques, such as Kaplan-Meier analysis, Cox regression analysis, and ConsensusClusterPlus clustering analysis, were used to identify PRGs related to the prognosis of bladder cancer patients, and functional analysis and clustering analysis were conducted in depth. …”
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Enhancing Pacific white shrimp immunity against Vibrio parahaemolyticus through β-glucan supplementation from marine diatoms by Chettupon Pooljun, Pitchanee Jariyapong, Patcharapon Laksana-aut, Ikuo Hirono, Suwit Wuthisuthimethavee

“…Key immune-related DEGs were validated by quantitative reverse transcription polymerase chain reaction (qRT-PCR). Functional analysis of the lysozyme (Lyz) gene was conducted through RNA interference (RNAi), followed by V. parahaemolyticus challenge. …”
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Identification of lactylation-related biomarkers in osteoporosis from transcriptome and single-cell data by Jiafeng Peng, Hongxing Zhang, Huaize Wang, Ting Jiang, Minglei Gao, Xingfu Ma, Yingzong Xiong, Yingchun Li, Ran Xu, Junchen Zhu

“…The nomogram showed that these two biomarkers could accurately predict OP risk. Functional analysis revealed that CSRP2 and FUBP1 were closely associated with inflammation regulation. …”
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Genomic islands and molecular mechanisms relating to drug-resistance in Clostridioides (Clostridium) difficile PCR ribotype 176 by Marcela Krutova, Vojtech Kovarovic, Marie Brajerova, Fanny Demay, Jaroslava Zikova, Suhanya Prasad, Anna Soltesova, Elena Novakova, Hanna Pituch, Ed Kuijper, Wiep Klaas Smits, Gabriela Balikova Novotna

“…Heterologous expression and functional analysis of the newly identified methyltransferase were performed.Results Core genome multilocus sequence typing found 10–37 allele differences. …”
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Unraveling the interplay between mesenchymal stem cells, gut microbiota, and systemic sclerosis: therapeutic implications by Lili Zhang, Hui Wang, Lu Zhao, Jin Zhang, Wenchang Sun, Jinjin Chu, Haobin Zhao, Chunjuan Yang, Shushan Yan, Xiaohua Chen, Donghua Xu

“…Additionally, the functional analysis revealed that MSCs intervention effectively enhanced sulfur metabolism, tryptophan metabolism, citrate cycle, RNA polymerase, and beta-lactam resistance. …”
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Scleral lenses application for the correction of postkeratoplastic ametropia by M.V. Sinitsyn, N.A. Pozdeeva, S.G. Bodrova, O.V. Shlenskaya, O.I. Tikhonova, A.E. Terent’eva

“…Conclusion. Clinical and functional analysis of the correction of postkeratoplastic ametropia with rigid gas-permeable scleral lenses during 5 years of observation showed: higher rates of best corrected visual acuity compared to spectacle correction by an average of 0.22±0.05, a significant decrease in corneal aberrations, a decrease in the density of cells of all corneal graft epithelium layers, high optical efficiency, and safety of their use during the entire observation period.…”
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Transcriptome Analysis and Functional Characterization of the <i>HvLRR_8-1</i> Gene Involved in Barley Resistance to <i>Pyrenophora graminea</i> by Wenjuan Yang, Ming Guo, Yan Li, Qinglan Yang, Huaizhi Zhang, Chengdao Li, Juncheng Wang, Yaxiong Meng, Xiaole Ma, Baochun Li, Lirong Yao, Hong Zhang, Ke Yang, Xunwu Shang, Erjing Si, Huajun Wang

“…Subcellular localization in tobacco indicates that the HvLRR_8-1 is localized on the cell membrane. Through the functional analysis using virus-induced gene silencing, it was demonstrated that <i>HvLRR_8-1</i> plays a critical role in regulating barley resistance to <i>Pg</i>. …”
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Conceptual Basis for Developing Electric Plot Combine Harvester with Combined Power-Generating Plant by Mikhail E. Chaplygin, Ivan A. Starostin, Alexander S. Ovcharenko

“…In the process of the study, there were used such methods as system analysis, structural and functional analysis, and synthesis. Results. There was carried out the analysis of machine harvesting technologies, technical characteristics and operating modes of modern plot grain combine harvesters. …”
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Nitrogen cycling during an Arctic bloom: from chemolithotrophy to nitrogen assimilation by Rafael Laso-Pérez, Juan Rivas-Santisteban, Nuria Fernandez-Gonzalez, Christopher J. Mundy, Javier Tamames, Carlos Pedrós-Alió

“…In contrast, during summer, the chemolithotrophic organisms thriving during winter reduced their relative abundance and the expression of their catabolic genes. Based on our functional analysis, we see a transition from a community where nitrogen-based chemolitotrophy plays a relevant role to a chemoorganotrophic community based on the carbohydrates released during the phytoplankton bloom, where different groups seem to specialize in different nitrogen sources.IMPORTANCEThe Arctic is one of the environments most affected by anthropogenic climate change. …”
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Comprehensive genome analysis of two Cytospora (Cytosporaceae, Diaporthales) species associated with canker disease of spruce: C. piceae and C. piceicola sp. nov. by Evgeny Ilyukhin, Yanpeng Chen, Svetlana Markovskaja, Ashwag Shami, Sajeewa S. N. Maharachchikumbura

“…Furthermore, the comparative genomics component of the study will facilitate the functional analysis of the genes of unknown function in all fungal pathogens.…”
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Identification of QTLs for early maturity-related traits based on RIL population of two elite cotton cultivars by Xiaoge Wang, Fanjin Kong, Liying Gao, Guifang Shen, Bing Duan, Zongwen Wang, Dongdong Xu, Degang Fan, Yongsheng Deng, Zongfu Han

“…One particular QTL cluster, which had the largest number of QTLs, ranged from 108.5 cM to 109 cM on Dt3, and contained 39 genes. Through functional analysis, we highlighted two early maturity-related candidates of GH_D03G1554 and GH_D03G1541, which were annotated as a BEL1-like homeodomain protein 8 and a homeobox-leucine zipper family protein, respectively. …”
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Exploring the bacterial communities in date palm roots in saline versus non-saline environment by Shafeeq Rahman, Manzoor Ahmad, Mughair Abdul Aziz, Taif Ibrahim Alrayssi, Asma Saleh Mohammad, Reem Alothman, Khaled Masmoudi

“…Differential abundance analysis indicated enrichment of halotolerant and halophilic bacterial taxa in saline soils, whereas non-saline soils favoured bacterial taxa involved in beneficial plant-microbe interactions. Functional analysis using PICRUSt2 revealed that bacterial communities in saline soils had a greater abundance of stress-tolerance mechanisms, whereas those from non-saline soils emphasized metabolic versatility. …”
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Proteome Alterations in Osteoarthritic Knee Cartilage: Comparative Analysis of Macroscopically Involved and Uninvolved Regions by Soundarrajan Dhanasekaran, Divya Arunachalam, Sharon M Nayagam, Chitra Thangavel, Shanmuganathan Rajasekaran

“…Applying a 75% detection threshold across samples, 289 proteins in uninvolved and 284 proteins in the involved regions were used for further downstream functional analysis. Among 259 proteins common to both regions, eight proteins exhibited significant differential expression: MATN3, ANG, SERPINA5, FGFBP2, EMILIN1, and HTRA1 were significantly upregulated, whereas APOC3 and TUBB were downregulated in macroscopically involved regions. …”
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Platelets in preeclampsia: an observational study of indices associated with aspirin nonresponsiveness, activation and transcriptional landscape by Gashaw Garedew Woldeamanuel, Kenean Getaneh Tlaye, Xueqin Wang, Long Nguyen-Hoang, Qiongjie Zhou, Yinan Wang, Bo Wah Leung, Yao Wang, Liona C. Poon, Chi Chiu Wang

“…RNA-seq analysis revealed a total of 20, 618 and 1819 transcripts in the peripheral blood, placental villous and decidua of preeclamptic women, respectively. Functional analysis revealed that the PI3K-Akt and Wnt signalling pathways were significantly enriched in the placental villous and decidua of preeclamptic patients, respectively. …”
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