Bioinformatics and experimental approach identify DNMT3A as a diagnostic marker associated with regulated cell death patterns in psoriasis
Regulated cell death (RCD) is crucial for the advancement of psoriasis, and providing opportunities as diagnostic indicators and drug sensitivity markers for psoriasis. Nevertheless, there is a lack of exploration regarding a thorough evaluation of RCD and psoriasis. 10 transcriptome datasets from p...
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Elsevier
2025-09-01
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| Series: | Journal of Genetic Engineering and Biotechnology |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S1687157X25000708 |
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| author | Linyu Zhu Zhiyu Ye Ling Wang Shaomin Chen Menger Guo Lvya Zhang Yuansheng Wu |
| author_facet | Linyu Zhu Zhiyu Ye Ling Wang Shaomin Chen Menger Guo Lvya Zhang Yuansheng Wu |
| author_sort | Linyu Zhu |
| collection | DOAJ |
| description | Regulated cell death (RCD) is crucial for the advancement of psoriasis, and providing opportunities as diagnostic indicators and drug sensitivity markers for psoriasis. Nevertheless, there is a lack of exploration regarding a thorough evaluation of RCD and psoriasis. 10 transcriptome datasets from psoriasis patients were retrieved, and then RCD mRNA profile was generated consensus cluster. Subsequently, RCD.score was conducted through machine-learning. Two psoriasis subclasses were identified., each exhibiting distinctive molecular patterns and immunologic landscape. Specifically, patients in molecular cluster B exhibited an immunosuppressive microenvironment, suggesting a non-inflamed immune infiltration phenotype. Then, an RCD.score was conducted, and RCD.score demonstrated promising diagnostic capabilities across 10 datasets. High RCD.score category exhibited a more active immune microenvironment, suggesting an inflamed immune infiltration phenotype. Additionally, scRNA-seq revealed an association between cell types and RCD.score, and RCD.score was higher in the T cells and psoriasis patients. Furthermore, Mendelian randomization screening revealed five genes (CDH6, MTHFR, DNMT3A, SETD1A, and RGS14) as feature genes for psoriasis, and validated in psoriasis patients. Recognizing RCD.score serves as an essential resource for prediction of psoriasis diagnostic, carrying wide-ranging implications for clinical practice. |
| format | Article |
| id | doaj-art-d98deb428fc644a3a463dc6e5ff186ba |
| institution | Kabale University |
| issn | 1687-157X |
| language | English |
| publishDate | 2025-09-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Journal of Genetic Engineering and Biotechnology |
| spelling | doaj-art-d98deb428fc644a3a463dc6e5ff186ba2025-08-24T05:11:47ZengElsevierJournal of Genetic Engineering and Biotechnology1687-157X2025-09-0123310052610.1016/j.jgeb.2025.100526Bioinformatics and experimental approach identify DNMT3A as a diagnostic marker associated with regulated cell death patterns in psoriasisLinyu Zhu0Zhiyu Ye1Ling Wang2Shaomin Chen3Menger Guo4Lvya Zhang5Yuansheng Wu6The Second Clinical College of Guangzhou University of Chinese Medicine, Guangzhou 510405, China; Department of Dermatovenereology, The Seventh Affiliated Hospital of Sun Yat-sen University, Shenzhen 518107, ChinaThe Second Clinical College of Guangzhou University of Chinese Medicine, Guangzhou 510405, China; Department of Traditional Chinese Medicine, The Seventh Affiliated Hospital of Sun Yat-sen University, Shenzhen 518107, ChinaDepartment of Dermatovenereology, The Seventh Affiliated Hospital of Sun Yat-sen University, Shenzhen 518107, ChinaDepartment of Dermatovenereology, Zhongshan Traditional Chinese Medicine Hospital, Zhongshan 528401, ChinaDepartment of Dermatovenereology, The Seventh Affiliated Hospital of Sun Yat-sen University, Shenzhen 518107, ChinaDepartment of Traditional Chinese Medicine, The Seventh Affiliated Hospital of Sun Yat-sen University, Shenzhen 518107, China; Corresponding authors at: Department of Traditional Chinese Medicine, The Seventh Affiliated Hospital of Sun Yat-sen University, Shenzhen 518107, China (Lvya Zhang). Department of Dermatovenereology, The Second Affiliated Hospital of Guangzhou University of Chinese Medicine (Guangdong Provincial Hospital of Chinese Medicine), No.111, Dade Rd,Yuexiu District, Guangzhou, 510120, China (Yuansheng Wu).The Second Clinical College of Guangzhou University of Chinese Medicine, Guangzhou 510405, China; Department of Dermatovenereology, The Second Affiliated Hospital of Guangzhou University of Chinese Medicine (Guangdong Provincial Hospital of Chinese Medicine), Guangzhou 510120, China; Corresponding authors at: Department of Traditional Chinese Medicine, The Seventh Affiliated Hospital of Sun Yat-sen University, Shenzhen 518107, China (Lvya Zhang). Department of Dermatovenereology, The Second Affiliated Hospital of Guangzhou University of Chinese Medicine (Guangdong Provincial Hospital of Chinese Medicine), No.111, Dade Rd,Yuexiu District, Guangzhou, 510120, China (Yuansheng Wu).Regulated cell death (RCD) is crucial for the advancement of psoriasis, and providing opportunities as diagnostic indicators and drug sensitivity markers for psoriasis. Nevertheless, there is a lack of exploration regarding a thorough evaluation of RCD and psoriasis. 10 transcriptome datasets from psoriasis patients were retrieved, and then RCD mRNA profile was generated consensus cluster. Subsequently, RCD.score was conducted through machine-learning. Two psoriasis subclasses were identified., each exhibiting distinctive molecular patterns and immunologic landscape. Specifically, patients in molecular cluster B exhibited an immunosuppressive microenvironment, suggesting a non-inflamed immune infiltration phenotype. Then, an RCD.score was conducted, and RCD.score demonstrated promising diagnostic capabilities across 10 datasets. High RCD.score category exhibited a more active immune microenvironment, suggesting an inflamed immune infiltration phenotype. Additionally, scRNA-seq revealed an association between cell types and RCD.score, and RCD.score was higher in the T cells and psoriasis patients. Furthermore, Mendelian randomization screening revealed five genes (CDH6, MTHFR, DNMT3A, SETD1A, and RGS14) as feature genes for psoriasis, and validated in psoriasis patients. Recognizing RCD.score serves as an essential resource for prediction of psoriasis diagnostic, carrying wide-ranging implications for clinical practice.http://www.sciencedirect.com/science/article/pii/S1687157X25000708PsoriasisRegulated cell deathMachine learningImmune infiltrationMendelian randomization |
| spellingShingle | Linyu Zhu Zhiyu Ye Ling Wang Shaomin Chen Menger Guo Lvya Zhang Yuansheng Wu Bioinformatics and experimental approach identify DNMT3A as a diagnostic marker associated with regulated cell death patterns in psoriasis Journal of Genetic Engineering and Biotechnology Psoriasis Regulated cell death Machine learning Immune infiltration Mendelian randomization |
| title | Bioinformatics and experimental approach identify DNMT3A as a diagnostic marker associated with regulated cell death patterns in psoriasis |
| title_full | Bioinformatics and experimental approach identify DNMT3A as a diagnostic marker associated with regulated cell death patterns in psoriasis |
| title_fullStr | Bioinformatics and experimental approach identify DNMT3A as a diagnostic marker associated with regulated cell death patterns in psoriasis |
| title_full_unstemmed | Bioinformatics and experimental approach identify DNMT3A as a diagnostic marker associated with regulated cell death patterns in psoriasis |
| title_short | Bioinformatics and experimental approach identify DNMT3A as a diagnostic marker associated with regulated cell death patterns in psoriasis |
| title_sort | bioinformatics and experimental approach identify dnmt3a as a diagnostic marker associated with regulated cell death patterns in psoriasis |
| topic | Psoriasis Regulated cell death Machine learning Immune infiltration Mendelian randomization |
| url | http://www.sciencedirect.com/science/article/pii/S1687157X25000708 |
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