Weighted Gene Co-Expression Network Analysis (WGCNA) discovered novel long non-coding RNAs for polycystic ovary yyndrome
Abstract: Polycystic ovary syndrome (PCOS) affects reproductive-age women. This condition causes infertility, insulin resistance, obesity, and heart difficulties. The molecular basis and mechanism of PCOS might potentially generate effective treatments. Long non-coding RNAs (lncRNAs) show control ov...
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| Format: | Article |
| Language: | English |
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Multidisciplinary Digital Publishing Institute
2023
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| Online Access: | http://psasir.upm.edu.my/id/eprint/108488/ http://psasir.upm.edu.my/id/eprint/108488/1/110448.pdf |
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| author | Heidarzadehpilehrood, Roozbeh Pirhoushiaran, Maryam Binti Osman, Malina Abdul Hamid, Habibah Ling, King-Hwa |
| author_facet | Heidarzadehpilehrood, Roozbeh Pirhoushiaran, Maryam Binti Osman, Malina Abdul Hamid, Habibah Ling, King-Hwa |
| author_sort | Heidarzadehpilehrood, Roozbeh |
| building | UPM Institutional Repository |
| collection | Online Access |
| description | Abstract: Polycystic ovary syndrome (PCOS) affects reproductive-age women. This condition causes infertility, insulin resistance, obesity, and heart difficulties. The molecular basis and mechanism of PCOS might potentially generate effective treatments. Long non-coding RNAs (lncRNAs) show control over multifactorial disorders growth and incidence. Numerous studies have emphasized its significance and alterations in PCOS. We used bioinformatic methods to find novel dysregulated lncRNAs in PCOS. To achieve this objective, the gene expression profile of GSE48301, comprising PCOS patients and normal control tissue samples, was evaluated using the R limma package with the following cut-off criterion: p-value < 0.05. Firstly, weighted gene co-expression network analysis (WGCNA) was used to determine the co-expression genes of lncRNAs; subsequently, hub gene identification and pathway enrichment analysis were used. With the defined criteria, nine novel dysregulated lncRNAs were identified. In WGCNA, different colors represent different modules. In the current study, WGCNA resulted in turquoise, gray, blue, and black co-expression modules with dysregulated lncRNAs. The pathway enrichment analysis of these co-expressed modules revealed enrichment in PCOS-associated pathways, including gene expression, signal transduction, metabolism, and apoptosis. In addition, CCT7, EFTUD2, ESR1, JUN, NDUFAB1, CTTNB1, GRB2, and CTNNB1 were identified as hub genes, and some of them have been investigated in PCOS. This study uncovered nine novel PCOS-related lncRNAs. To confirm how these lncRNAs control translational modification in PCOS, functional studies are required. |
| first_indexed | 2025-11-15T14:40:54Z |
| format | Article |
| id | upm-108488 |
| institution | Universiti Putra Malaysia |
| institution_category | Local University |
| language | English |
| last_indexed | 2025-11-15T14:40:54Z |
| publishDate | 2023 |
| publisher | Multidisciplinary Digital Publishing Institute |
| recordtype | eprints |
| repository_type | Digital Repository |
| spelling | upm-1084882025-09-23T04:17:45Z http://psasir.upm.edu.my/id/eprint/108488/ Weighted Gene Co-Expression Network Analysis (WGCNA) discovered novel long non-coding RNAs for polycystic ovary yyndrome Heidarzadehpilehrood, Roozbeh Pirhoushiaran, Maryam Binti Osman, Malina Abdul Hamid, Habibah Ling, King-Hwa Abstract: Polycystic ovary syndrome (PCOS) affects reproductive-age women. This condition causes infertility, insulin resistance, obesity, and heart difficulties. The molecular basis and mechanism of PCOS might potentially generate effective treatments. Long non-coding RNAs (lncRNAs) show control over multifactorial disorders growth and incidence. Numerous studies have emphasized its significance and alterations in PCOS. We used bioinformatic methods to find novel dysregulated lncRNAs in PCOS. To achieve this objective, the gene expression profile of GSE48301, comprising PCOS patients and normal control tissue samples, was evaluated using the R limma package with the following cut-off criterion: p-value < 0.05. Firstly, weighted gene co-expression network analysis (WGCNA) was used to determine the co-expression genes of lncRNAs; subsequently, hub gene identification and pathway enrichment analysis were used. With the defined criteria, nine novel dysregulated lncRNAs were identified. In WGCNA, different colors represent different modules. In the current study, WGCNA resulted in turquoise, gray, blue, and black co-expression modules with dysregulated lncRNAs. The pathway enrichment analysis of these co-expressed modules revealed enrichment in PCOS-associated pathways, including gene expression, signal transduction, metabolism, and apoptosis. In addition, CCT7, EFTUD2, ESR1, JUN, NDUFAB1, CTTNB1, GRB2, and CTNNB1 were identified as hub genes, and some of them have been investigated in PCOS. This study uncovered nine novel PCOS-related lncRNAs. To confirm how these lncRNAs control translational modification in PCOS, functional studies are required. Multidisciplinary Digital Publishing Institute 2023 Article PeerReviewed text en cc_by_4 http://psasir.upm.edu.my/id/eprint/108488/1/110448.pdf Heidarzadehpilehrood, Roozbeh and Pirhoushiaran, Maryam and Binti Osman, Malina and Abdul Hamid, Habibah and Ling, King-Hwa (2023) Weighted Gene Co-Expression Network Analysis (WGCNA) discovered novel long non-coding RNAs for polycystic ovary yyndrome. Biomedicines, 11 (2). pp. 1-16. ISSN 2227-9059 https://www.mdpi.com/2227-9059/11/2/518 10.3390/ biomedicines11020518 |
| spellingShingle | Heidarzadehpilehrood, Roozbeh Pirhoushiaran, Maryam Binti Osman, Malina Abdul Hamid, Habibah Ling, King-Hwa Weighted Gene Co-Expression Network Analysis (WGCNA) discovered novel long non-coding RNAs for polycystic ovary yyndrome |
| title | Weighted Gene Co-Expression Network Analysis (WGCNA) discovered novel long non-coding RNAs for polycystic ovary yyndrome |
| title_full | Weighted Gene Co-Expression Network Analysis (WGCNA) discovered novel long non-coding RNAs for polycystic ovary yyndrome |
| title_fullStr | Weighted Gene Co-Expression Network Analysis (WGCNA) discovered novel long non-coding RNAs for polycystic ovary yyndrome |
| title_full_unstemmed | Weighted Gene Co-Expression Network Analysis (WGCNA) discovered novel long non-coding RNAs for polycystic ovary yyndrome |
| title_short | Weighted Gene Co-Expression Network Analysis (WGCNA) discovered novel long non-coding RNAs for polycystic ovary yyndrome |
| title_sort | weighted gene co-expression network analysis (wgcna) discovered novel long non-coding rnas for polycystic ovary yyndrome |
| url | http://psasir.upm.edu.my/id/eprint/108488/ http://psasir.upm.edu.my/id/eprint/108488/ http://psasir.upm.edu.my/id/eprint/108488/ http://psasir.upm.edu.my/id/eprint/108488/1/110448.pdf |