A novel multi-omics approach for identifying key genes in intervertebral disc degeneration
Many different cell types and complex molecular pathways are involved in intervertebral disc degeneration (IDD). We used a multi-omics approach combining single-cell RNA sequencing (scRNA-seq), differential gene expression analysis, and Mendelian randomization (MR) to clarify the underlying genetic...
Saved in:
| Main Authors: | , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Elsevier
2024-12-01
|
| Series: | SLAS Technology |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2472630324001055 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1850114136650809344 |
|---|---|
| author | Xuan Zhao Qijun Wang Shuaikang Wang Wei Wang Xiaolong Chen Shibao Lu |
| author_facet | Xuan Zhao Qijun Wang Shuaikang Wang Wei Wang Xiaolong Chen Shibao Lu |
| author_sort | Xuan Zhao |
| collection | DOAJ |
| description | Many different cell types and complex molecular pathways are involved in intervertebral disc degeneration (IDD). We used a multi-omics approach combining single-cell RNA sequencing (scRNA-seq), differential gene expression analysis, and Mendelian randomization (MR) to clarify the underlying genetic architecture of IDD. We identified 1,164 differentially expressed genes (DEGs) across four important cell types associated with IDD using publicly available single-cell datasets. A thorough gene network analysis identified 122 genes that may be connected to programmed cell death (PCD), a crucial route in the etiology of IDD. SLC40A1, PTGS2, and GABARAPL1 have been identified as noteworthy regulatory genes that may impede the advancement of IDD. Furthermore, distinct cellular subpopulations and dynamic gene expression patterns were revealed by functional enrichment analysis and pseudo-temporal ordering of chondrocytes. Our results highlight the therapeutic potential of GABARAPL1, PTGS2, and SLC40A1 targeting in the treatment of IDD. |
| format | Article |
| id | doaj-art-c0ff7f6bbe6b43f8898a7b7ad7337ef3 |
| institution | OA Journals |
| issn | 2472-6303 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | Elsevier |
| record_format | Article |
| series | SLAS Technology |
| spelling | doaj-art-c0ff7f6bbe6b43f8898a7b7ad7337ef32025-08-20T02:36:58ZengElsevierSLAS Technology2472-63032024-12-0129610022310.1016/j.slast.2024.100223A novel multi-omics approach for identifying key genes in intervertebral disc degenerationXuan Zhao0Qijun Wang1Shuaikang Wang2Wei Wang3Xiaolong Chen4Shibao Lu5Department of Orthopedics, Xuanwu Hospital, Capital Medical University, Beijing, China; National Clinical Research Center for Geriatric Diseases, Beijing, ChinaDepartment of Orthopedics, Xuanwu Hospital, Capital Medical University, Beijing, China; National Clinical Research Center for Geriatric Diseases, Beijing, ChinaDepartment of Orthopedics, Xuanwu Hospital, Capital Medical University, Beijing, China; National Clinical Research Center for Geriatric Diseases, Beijing, ChinaDepartment of Orthopedics, Xuanwu Hospital, Capital Medical University, Beijing, China; National Clinical Research Center for Geriatric Diseases, Beijing, China; Corresponding authors at: Department of Orthopedics, Xuanwu Hospital, Capital Medical University, Beijing, China.Department of Orthopedics, Xuanwu Hospital, Capital Medical University, Beijing, China; National Clinical Research Center for Geriatric Diseases, Beijing, China; Corresponding authors at: Department of Orthopedics, Xuanwu Hospital, Capital Medical University, Beijing, China.Department of Orthopedics, Xuanwu Hospital, Capital Medical University, Beijing, China; National Clinical Research Center for Geriatric Diseases, Beijing, China; Corresponding authors at: Department of Orthopedics, Xuanwu Hospital, Capital Medical University, Beijing, China.Many different cell types and complex molecular pathways are involved in intervertebral disc degeneration (IDD). We used a multi-omics approach combining single-cell RNA sequencing (scRNA-seq), differential gene expression analysis, and Mendelian randomization (MR) to clarify the underlying genetic architecture of IDD. We identified 1,164 differentially expressed genes (DEGs) across four important cell types associated with IDD using publicly available single-cell datasets. A thorough gene network analysis identified 122 genes that may be connected to programmed cell death (PCD), a crucial route in the etiology of IDD. SLC40A1, PTGS2, and GABARAPL1 have been identified as noteworthy regulatory genes that may impede the advancement of IDD. Furthermore, distinct cellular subpopulations and dynamic gene expression patterns were revealed by functional enrichment analysis and pseudo-temporal ordering of chondrocytes. Our results highlight the therapeutic potential of GABARAPL1, PTGS2, and SLC40A1 targeting in the treatment of IDD.http://www.sciencedirect.com/science/article/pii/S2472630324001055Intervertebral disc degenerationProgrammed cell deathMendelian randomizationSingle cell analysis |
| spellingShingle | Xuan Zhao Qijun Wang Shuaikang Wang Wei Wang Xiaolong Chen Shibao Lu A novel multi-omics approach for identifying key genes in intervertebral disc degeneration SLAS Technology Intervertebral disc degeneration Programmed cell death Mendelian randomization Single cell analysis |
| title | A novel multi-omics approach for identifying key genes in intervertebral disc degeneration |
| title_full | A novel multi-omics approach for identifying key genes in intervertebral disc degeneration |
| title_fullStr | A novel multi-omics approach for identifying key genes in intervertebral disc degeneration |
| title_full_unstemmed | A novel multi-omics approach for identifying key genes in intervertebral disc degeneration |
| title_short | A novel multi-omics approach for identifying key genes in intervertebral disc degeneration |
| title_sort | novel multi omics approach for identifying key genes in intervertebral disc degeneration |
| topic | Intervertebral disc degeneration Programmed cell death Mendelian randomization Single cell analysis |
| url | http://www.sciencedirect.com/science/article/pii/S2472630324001055 |
| work_keys_str_mv | AT xuanzhao anovelmultiomicsapproachforidentifyingkeygenesinintervertebraldiscdegeneration AT qijunwang anovelmultiomicsapproachforidentifyingkeygenesinintervertebraldiscdegeneration AT shuaikangwang anovelmultiomicsapproachforidentifyingkeygenesinintervertebraldiscdegeneration AT weiwang anovelmultiomicsapproachforidentifyingkeygenesinintervertebraldiscdegeneration AT xiaolongchen anovelmultiomicsapproachforidentifyingkeygenesinintervertebraldiscdegeneration AT shibaolu anovelmultiomicsapproachforidentifyingkeygenesinintervertebraldiscdegeneration AT xuanzhao novelmultiomicsapproachforidentifyingkeygenesinintervertebraldiscdegeneration AT qijunwang novelmultiomicsapproachforidentifyingkeygenesinintervertebraldiscdegeneration AT shuaikangwang novelmultiomicsapproachforidentifyingkeygenesinintervertebraldiscdegeneration AT weiwang novelmultiomicsapproachforidentifyingkeygenesinintervertebraldiscdegeneration AT xiaolongchen novelmultiomicsapproachforidentifyingkeygenesinintervertebraldiscdegeneration AT shibaolu novelmultiomicsapproachforidentifyingkeygenesinintervertebraldiscdegeneration |