Proteome differences of dental stem cells between permanent and deciduous teeth by data-independent acquisition proteomics by Zhang Suping, Liu Yuqing, Dong Jin, Jiao Min, Gu Yongchun, Chen Liling, Yuan Na, Wang Jianrong, Yang Dezhao, Meng Fanwen

“…By comparing their expression levels, 209 differentially expressed proteins were identified. Subsequent Gene Ontology and Kyoto Encyclopedia of Genes and Genomes enrichment analyses, along with protein–protein interaction network construction, revealed significant metabolic differences and key regulatory nodes. …”
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Transcriptomics and Physiological Analyses of Soybean Stay-Green Syndrome by Dagang Wang, Yanan Wang, Ruidong Sun, Yong Yang, Wei Zhao, Guoyi Yu, Yueying Wang, Feng Wang, Lin Zhou, Zhiping Huang

“…DEGs were classified using gene ontology (GO) terms, and photosynthesis-related genes <i>α-glucosidase</i>, <i>β-mannosidase</i>, <i>β-amylase 5</i> (<i>GmBAM5</i>), and <i>starch synthase 2</i> (<i>GmSS2</i>) were up-regulated. …”
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The impaired response of nasal epithelial cells to microplastic stimulation in asthma and COPD by Magdalena Paplińska-Goryca, Paulina Misiukiewicz-Stępień, Monika Wróbel, Katarzyna Mycroft-Rzeszotarska, Dorota Adamska, Julia Rachowka, Milena Królikowska, Krzysztof Goryca, Rafał Krenke

“…Microplastic exposure induced inflammatory cytokine secretion only for IL-8 production in controls (epithelial/ moMφs co-culture) and asthmatic (monoculture) epithelial cells in contrast to PM2.5, which was a strong inflammatory inducer. Gene Ontology analysis revealed that microplastic exposure affected sterol and cholesterol biosynthesis, secondary alcohol metabolism, and acetyl-CoA metabolism in asthma, and cell motility, chemokine signaling, leukocyte migration, and chemotaxis in COPD. …”
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Blood transcriptome resources of chinstrap () and gentoo () penguins from the South Shetland Islands, Antarctica by Bo-Mi Kim, Jihye Jeong, Euna Jo, Do-Hwan Ahn, Jeong-Hoon Kim, Jae-Sung Rhee, Hyun Park

“…Functional gene annotations through pathway analyses of the Gene Ontology, EuKaryotic Orthologous Groups, and Kyoto Encyclopedia of Genes and Genomes (KEGG) databases were performed for each blood transcriptome, resulting in a similar compositional order between the two transcriptomes. …”
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Comprehensive Pan-Cancer Analysis and Functional Studies Reveal SLC2A6 as a Ferroptosis Modulator in Hepatocellular carcinoma by Guohong Yan, Hailian Huang, Ziyan Lu, Meifeng Chen, Xiang Wang, Pei Zhong, Chongjiu Qin, Shutian Mo, Chuangye Han, Xiaoling Luo, Xinping Ye

“…This study utilized multiple databases to investigate the relationship between SLC2A6 expression and clinical stage, methylation status, drug sensitivity, immune infiltration, and immune checkpoint regulation. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses were conducted. …”
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Genome-Wide Expression Profiles of Hemp (Cannabis sativa L.) in Response to Drought Stress by Chunsheng Gao, Chaohua Cheng, Lining Zhao, Yongting Yu, Qing Tang, Pengfei Xin, Touming Liu, Zhun Yan, Yuan Guo, Gonggu Zang

“…The expression patterns of 12 selected genes were validated by qRT-PCR, and the results were accordant with Illumina analysis. Gene Ontology (GO) and KEGG analysis illuminated particular important biological processes and pathways, which enriched many candidate genes such as NAC, B3, peroxidase, expansin, and inositol oxygenase that may play important roles in hemp tolerance to drought. …”
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High β-sitosterol-D-glucoside content in sweet potato varieties and its anti-breast cancer potential through multiple metastasis-associated signals by Jinyin Zhang, Lu Huang, Xiang Tang, Miao Pan, Xiaoli Ye, Xuegang Li, Hang Ma

“…Proteomic analysis of tumor tissues revealed that 127 of these proteins were upregulated and 80 were downregulated. Gene ontology and network analysis showed that regulatory proteins were mainly associated with epithelial-mesenchymal transition (EMT), myogenesis, cholesterol homeostasis, oxidative phosphorylation and reactive oxygen pathways, while Vimentin, NDUF, VDAC1, PPP2CA and SNx9 were the most significant 5 node degree genes. …”
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The Intersection of Quranic Studies and Modern Technology: A Bibliometric Analysis of Academic Publications from 2000 to 2024 by Andri Nirwana AN, Mahmudulhassan Mahmudulhassan, Mohamad Ali, Muthoifin Muthoifin, Waston Waston, Abdul Rahman Bin S. Senathirajah

“…Important phrases like “Quran,” "ontology,” and “engineering education” became crucial to narrowly targeted study projects. …”
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Identification of reproductive performance in Bali-polled bulls using computer-assisted semen analysis and plasma seminal proteomics by Athhar Manabi Diansyah, Sanstoso Santoso, Herdis Herdis, Muhammad Yusuf, Tri Puji Priyatno, Tulus Maulana, Abdul Latief Toleng, Muhammad Ihsan Andi Dagong, Syahruddin Said, Hikmayani Iskandar, Aeni Nurlatifah, Puji Lestari, Lukman Affandy, Abdullah Baharun

“…Seminal plasma proteins were analyzed through liquid chromatography–tandem mass spectrometry (LC-MS/MS) and annotated using the UniProt database, PANTHER for gene ontology, and STRING database for protein interactions. …”
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Differences in gene expression profile between vocal cord Leukoplakia and normal larynx mucosa by gene chip by Jianhua Peng, He Li, Jun Chen, Xianming Wu, Tao Jiang, Xiaoyun Chen

“…In this study, we used microarrays to investigate the aberrantly expressed lncRNAs and mRNAs in vocal cord leukoplakia and adjacent non-neoplastic tissues. Methods Gene Ontology and pathway analyses were performed to determine the significant function and pathways of the differentially expressed mRNAs. qRT-PCR was performed to further validate the expression of selected lncRNAs and mRNAs in vocal cord leukoplakia. …”
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Deciphering the dose-dependent effects of thymoquinone on cellular proliferation and transcriptomic changes in A172 glioblastoma cells. by Rachana Pandey, Purushothaman Natarajan, Umesh K Reddy, Wei Du, Cristian Sirbu, Moussa Sissoko, Gerald R Hankins

“…We confirmed their expression levels through quantitative RT-PCR and performed Gene Ontology and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses for these DEGs. …”
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Prediction of influenza A virus-human protein-protein interactions using XGBoost with continuous and discontinuous amino acids information by Binghua Li, Xin Li, Xiaoyu Li, Li Wang, Jun Lu, Jia Wang

“…Finally, we successfully identified 3,269 potential target proteins. Gene ontology (GO) and pathway analysis showed that these genes were highly associated with IAV infection. …”
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Genetic analysis of ocular tumour-associated genes using large genomic datasets: insights into selection constraints and variant representation in the population by Jose S Pulido, Mandeep S Sagoo, Omar A Mahroo, Alexander Tanner

“…UniProt was used for further gene characterisation, and gene ontology Protein Analysis THrough Evolutionary Relationships was explored for common biological pathways. …”
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Identification of mitophagy-related biomarkers and immune infiltration in polycystic ovarian syndrome by bioinformatic study by Hongjuan Ye, Xicheng Wang, Zhiying He

“…Methods: Training datasets were used for differential expression genes. Gene ontology annotations and Kyoto encyclopedia of genes and genomes signaling pathway enrichment analysis were performed. …”
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Construction and validation of a senescence-related gene signature for early prediction and treatment of osteoarthritis based on bioinformatics analysis by Yonggang Wang, Zhihao Li, Xiaolong Xu, Xin Li, Rongxiang Huang, Guofeng Wu

“…Differentially expressed senescence-related genes (DESRGs) selected from Cellular senescence-related genes (SRGs) and differentially expressed genes (DEGs) were analyzed using Gene Ontology enrichment, Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways and protein–protein interaction networks. …”
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Construction of a potentially functional long noncoding RNA-microRNA-mRNA network in diabetic cardiomyopathy by Qiwen Cao, Zhihui Dong, Yangbo Xi, Jiana Zhong, Jianzhong Huang, Qunfeng Yang

“…Materials and Methods: Three expression profiles datasets (GSE161827, GSE161931, and GSE241166) were collected from gene expression omnibus database and then integrated for the identification of differentially expressed genes (DEGs). Gene Ontology, Kyoto Encyclopedia of Gene and Genome pathway analysis, and Gene set enrichment analysis (GSEA) were employed for functional analysis. …”
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Understanding the role of potential biomarkers in attenuating multiple sclerosis progression via multiomics and network-based approach. by Nitesh Shriwash, Ayesha Aiman, Prithvi Singh, Seemi Farhat Basir, Anas Shamsi, Mohammad Shahid, Ravins Dohare, Asimul Islam

“…WGCN revealed a total of 122 hub DEGs of which most significant pathway, gene ontology (GO)-biological process (BP), GO-molecular function (MF) and GO-cellular compartment (CC) terms were assembly and cell surface presentation of N-methyl-D-aspartate (NMDA) receptors, regulation of catabolic process, NAD(P)H oxidase H2O2 forming activity, postsynaptic recycling endosome. …”
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Metastatic melanoma: An integrated analysis to identify critical regulators associated with prognosis, pathogenesis and targeted therapies. by Zeinab Chaharlashkar, Yousof Saeedi Honar, Meghdad Abdollahpour-Alitappeh, Sepideh Parvizpour, Abolfazl Barzegar, Effat Alizadeh

“…After exploration of DEGs of NS and metastatic-melanoma, identification of relevant transcription factors (TFs) and kinases, the Gene Ontology (GO), and pathways analyses of DEGs were performed. …”
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Proteomic analysis of whole blood to investigate the therapeutic effects of nervonic acid on cerebral ischemia-reperfusion injury in rats by Qingqing Li, Fengrong Zhang, Xianyu Li, Qing Wang

“…The differential protein expression profile was analyzed using Liquid Chromatography—Tandem Mass Spectrometry (LC-MS/MS) whole blood proteomics.ResultsZZZGene Ontology (GO) analysis revealed that, compared to ginkgo biloba extract (EGb), the proteins differentially expressed under NA intervention were predominantly involved in oxidative stress response and calcium-dependent adhesion processes. …”
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ANTHROPOLOGIZATION OF SCIENCE: FROM THE SUBJECT OF COGNITION TO THE RESEARCHER’S PERSONALITY by N. V. Kryvtsova, I. A. Donnikova

“…Including the concept of the subject of cognition in the ontology of the unity of difference-multidimensional poly-essential autopoetic integrity, the anthropologization of science is intended to revive the ancient idea in the unity of truth ("ἀλήθεια"), education ("παιδεία") and skill ("τέχνη") of a scientist, defining the ideal of a modern human-transfessional.…”
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