ArticleGenes2025
Integrating Transcriptomics, Network Pharmacology, and Machine Learning to Reveal Transglutaminase 2 (TGM2) as a Key Target Mediating Taurocholate Efficacy in Colitis.
Junhong Zhu, Huijin Jia, Lanlan Yi, Guangyao Song, Pengfei Fu, Wenjie Cheng, Yuxiao Xie, Wenzhe Shi, Sumei Zhao
Abstract read
In one paragraphArticle in Genes, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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0citing papers in PubMed
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What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
2 · The registryThe trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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3 · Its place in the literatureWho cites it
0 citing papers in PubMed.
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4 · The recordCorrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
5 · Who and what moneyAuthors and funding
9 authors.
Junhong ZhuYunnan Provincial Key Laboratory of Animal Nutrition and Feed, Faculty of Animal Science and Technology, Yunnan Agricultural University, Kunming 650201, China.ORCID 0009-0002-6431-6330 Huijin JiaYunnan Provincial Key Laboratory of Animal Nutrition and Feed, Faculty of Animal Science and Technology, Yunnan Agricultural University, Kunming 650201, China.
Lanlan YiYunnan Provincial Key Laboratory of Animal Nutrition and Feed, Faculty of Animal Science and Technology, Yunnan Agricultural University, Kunming 650201, China.
Guangyao SongYunnan Provincial Key Laboratory of Animal Nutrition and Feed, Faculty of Animal Science and Technology, Yunnan Agricultural University, Kunming 650201, China.
Pengfei FuYunnan Provincial Key Laboratory of Animal Nutrition and Feed, Faculty of Animal Science and Technology, Yunnan Agricultural University, Kunming 650201, China.
Wenjie ChengYunnan Provincial Key Laboratory of Animal Nutrition and Feed, Faculty of Animal Science and Technology, Yunnan Agricultural University, Kunming 650201, China.ORCID 0009-0008-9961-821X Yuxiao XieYunnan Provincial Key Laboratory of Animal Nutrition and Feed, Faculty of Animal Science and Technology, Yunnan Agricultural University, Kunming 650201, China.
Wenzhe ShiYunnan Provincial Key Laboratory of Animal Nutrition and Feed, Faculty of Animal Science and Technology, Yunnan Agricultural University, Kunming 650201, China.
Sumei ZhaoYunnan Provincial Key Laboratory of Animal Nutrition and Feed, Faculty of Animal Science and Technology, Yunnan Agricultural University, Kunming 650201, China.
Funding
Major Science and Technology Project of Yunnan Province 202102AA310054Major Science and Technology Project of Yunnan Province 202202AE090032Science and Technology Plan Project of the Department of Science and Technology of Yunnan Province 202501BD070001-038Scientifc Research Fund of Yunnan Provincial Department of Education 2025J0411State School Cooperation 2020ZXND02Technological Innovation Talent Program 2020FA011the National key research and development project 2024YFD1800404the National Natural Science Foundation of China 31060331the National Natural Science Foundation of China 31260592the National Natural Science Foundation of China 31760645the National Natural Science Foundation of China 32360808
6 · The paper itselfAbstract
backgroundUlcerative colitis (UC) is a chronic inflammatory disease of the colon with a rising global incidence. Natural conjugated taurocholic acid (TCA) possesses anti-inflammatory properties and shows potential therapeutic effects against UC, although the underlying mechanisms remain unclear.
methodsThis study employed an integrative approach-combining network pharmacology, bioinformatics, machine learning, immune infiltration analysis, and molecular docking-to investigate the therapeutic mechanisms of TCA in UC. UC-related gene expression datasets were obtained from the Gene Expression Omnibus (GEO) database, and potential TCA targets were predicted using the Comparative Toxicogenomics Database (CTD) and TargetNet platforms. Differentially expressed genes (DEGs) were identified and analyzed via GO and KEGG enrichment analyses.
resultsFour machine learning algorithms (XGBoost, RF, SVM, and NNet) were used to identify six hub genes (
conclusionsIn conclusion, this study suggests that taurocholate alleviates ulcerative colitis by targeting key genes such as
Indexed as
Colitis, UlcerativeGTP-Binding ProteinsTaurocholic AcidTranscriptomeTransglutaminasesAnimalsComputational BiologyGene Expression ProfilingGene Regulatory NetworksHumansMachine LearningMiceMolecular Docking SimulationNetwork PharmacologyProtein Glutamine gamma Glutamyltransferase 2GTP-Binding ProteinsProtein Glutamine gamma Glutamyltransferase 2Taurocholic AcidTGM2 protein, humanTransglutaminasesmachine learningmolecular dockingnetwork pharmacologytaurocholateulcerative colitis
Identifiers
PMID41009970
PMCPMC12469685
What Socratic holds
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LicenceCC BY
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