Identification of immune and Toll-like receptor signaling pathway related feature lncRNAs to construct diagnostic nomograms for acute ischemic stroke
Abstract We aimed to identify the immune and Toll-like receptor (TLR) signaling pathway related feature lncRNAs to construct the diagnostic nomograms for acute ischemic stroke (AIS). Two AIS-associated expression profiles GSE16561 and GSE22255 were downloaded from NCBI Gene Expression Omnibus, the f...
| Main Authors: | , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Nature Portfolio
2023-04-01
|
| Series: | Scientific Reports |
| Online Access: | https://doi.org/10.1038/s41598-023-33059-5 |
| _version_ | 1797841060864458752 |
|---|---|
| author | Zhuo-Yi Su Zi-Qiao Yu Bo Yao De-Xi Zhao |
| author_facet | Zhuo-Yi Su Zi-Qiao Yu Bo Yao De-Xi Zhao |
| author_sort | Zhuo-Yi Su |
| collection | DOAJ |
| description | Abstract We aimed to identify the immune and Toll-like receptor (TLR) signaling pathway related feature lncRNAs to construct the diagnostic nomograms for acute ischemic stroke (AIS). Two AIS-associated expression profiles GSE16561 and GSE22255 were downloaded from NCBI Gene Expression Omnibus, the former was the training set and the latter was the validation set. The differential expression genes (DEGs) and lncRNAs (DElncRNAs) related to TLR signaling pathway were identified between AIS and control groups. The single sample gene set enrichment analysis (ssGSEA) was applied to evaluate the immune infiltration. The immune and TLR signaling pathway related DElncRNAs were determined. Three optimization algorithms were utilized to select the immune and TLR signaling pathway related feature lncRNAs to construct the diagnostic nomograms of AIS. Based on the lncRNA signature, a ceRNA network was constructed. 37 DEGs and 28 DElncRNAs related to TLR signaling pathway were identified in GSE16561. 16 immune cell types exhibited significant differences in distribution between AIS and control groups. 28 immune and TLR signaling pathway related DElncRNAs were determined. 8 immune and TLR signaling pathway related feature lncRNAs were selected. The diagnostic nomograms of AIS performed well in both datasets. A ceRNA network was constructed consisting of 7 immune and TLR signaling pathway related feature lncRNAs as well as 19 AIS related miRNAs and 21 TLR signaling pathway related genes. LINC00173, LINC01089, LINC02210, MIR600HG, SNHG14, TP73-AS1, LINC00680 and CASC2 may be the potential biomarkers of AIS diagnosis, and TLR signaling pathway may be a promising immune related therapeutic target for AIS. |
| first_indexed | 2024-04-09T16:24:53Z |
| format | Article |
| id | doaj.art-22a2b73d1a434ff091d590e271e5b061 |
| institution | Directory Open Access Journal |
| issn | 2045-2322 |
| language | English |
| last_indexed | 2024-04-09T16:24:53Z |
| publishDate | 2023-04-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj.art-22a2b73d1a434ff091d590e271e5b0612023-04-23T11:14:58ZengNature PortfolioScientific Reports2045-23222023-04-011311810.1038/s41598-023-33059-5Identification of immune and Toll-like receptor signaling pathway related feature lncRNAs to construct diagnostic nomograms for acute ischemic strokeZhuo-Yi Su0Zi-Qiao Yu1Bo Yao2De-Xi Zhao3Changchun University of Chinese MedicineChangchun University of Chinese MedicineSchool of Aeronautical Fundamentals, Aviation University of Air ForceChangchun University of Chinese MedicineAbstract We aimed to identify the immune and Toll-like receptor (TLR) signaling pathway related feature lncRNAs to construct the diagnostic nomograms for acute ischemic stroke (AIS). Two AIS-associated expression profiles GSE16561 and GSE22255 were downloaded from NCBI Gene Expression Omnibus, the former was the training set and the latter was the validation set. The differential expression genes (DEGs) and lncRNAs (DElncRNAs) related to TLR signaling pathway were identified between AIS and control groups. The single sample gene set enrichment analysis (ssGSEA) was applied to evaluate the immune infiltration. The immune and TLR signaling pathway related DElncRNAs were determined. Three optimization algorithms were utilized to select the immune and TLR signaling pathway related feature lncRNAs to construct the diagnostic nomograms of AIS. Based on the lncRNA signature, a ceRNA network was constructed. 37 DEGs and 28 DElncRNAs related to TLR signaling pathway were identified in GSE16561. 16 immune cell types exhibited significant differences in distribution between AIS and control groups. 28 immune and TLR signaling pathway related DElncRNAs were determined. 8 immune and TLR signaling pathway related feature lncRNAs were selected. The diagnostic nomograms of AIS performed well in both datasets. A ceRNA network was constructed consisting of 7 immune and TLR signaling pathway related feature lncRNAs as well as 19 AIS related miRNAs and 21 TLR signaling pathway related genes. LINC00173, LINC01089, LINC02210, MIR600HG, SNHG14, TP73-AS1, LINC00680 and CASC2 may be the potential biomarkers of AIS diagnosis, and TLR signaling pathway may be a promising immune related therapeutic target for AIS.https://doi.org/10.1038/s41598-023-33059-5 |
| spellingShingle | Zhuo-Yi Su Zi-Qiao Yu Bo Yao De-Xi Zhao Identification of immune and Toll-like receptor signaling pathway related feature lncRNAs to construct diagnostic nomograms for acute ischemic stroke Scientific Reports |
| title | Identification of immune and Toll-like receptor signaling pathway related feature lncRNAs to construct diagnostic nomograms for acute ischemic stroke |
| title_full | Identification of immune and Toll-like receptor signaling pathway related feature lncRNAs to construct diagnostic nomograms for acute ischemic stroke |
| title_fullStr | Identification of immune and Toll-like receptor signaling pathway related feature lncRNAs to construct diagnostic nomograms for acute ischemic stroke |
| title_full_unstemmed | Identification of immune and Toll-like receptor signaling pathway related feature lncRNAs to construct diagnostic nomograms for acute ischemic stroke |
| title_short | Identification of immune and Toll-like receptor signaling pathway related feature lncRNAs to construct diagnostic nomograms for acute ischemic stroke |
| title_sort | identification of immune and toll like receptor signaling pathway related feature lncrnas to construct diagnostic nomograms for acute ischemic stroke |
| url | https://doi.org/10.1038/s41598-023-33059-5 |
| work_keys_str_mv | AT zhuoyisu identificationofimmuneandtolllikereceptorsignalingpathwayrelatedfeaturelncrnastoconstructdiagnosticnomogramsforacuteischemicstroke AT ziqiaoyu identificationofimmuneandtolllikereceptorsignalingpathwayrelatedfeaturelncrnastoconstructdiagnosticnomogramsforacuteischemicstroke AT boyao identificationofimmuneandtolllikereceptorsignalingpathwayrelatedfeaturelncrnastoconstructdiagnosticnomogramsforacuteischemicstroke AT dexizhao identificationofimmuneandtolllikereceptorsignalingpathwayrelatedfeaturelncrnastoconstructdiagnosticnomogramsforacuteischemicstroke |