Identification of ligand and receptor interactions in CKD and MASH through the integration of single cell and spatial transcriptomics.
<h4>Background</h4>Chronic Kidney Disease (CKD) and Metabolic dysfunction-associated steatohepatitis (MASH) are metabolic fibroinflammatory diseases. Combining single-cell (scRNAseq) and spatial transcriptomics (ST) could give unprecedented molecular disease understanding at single-cell...
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| Format: | Article |
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Public Library of Science (PLoS)
2024-01-01
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| Series: | PLoS ONE |
| Online Access: | https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0302853&type=printable |
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| author | Jaime Moreno Lise Lotte Gluud Elisabeth D Galsgaard Henning Hvid Gianluca Mazzoni Vivek Das |
| author_facet | Jaime Moreno Lise Lotte Gluud Elisabeth D Galsgaard Henning Hvid Gianluca Mazzoni Vivek Das |
| author_sort | Jaime Moreno |
| collection | DOAJ |
| description | <h4>Background</h4>Chronic Kidney Disease (CKD) and Metabolic dysfunction-associated steatohepatitis (MASH) are metabolic fibroinflammatory diseases. Combining single-cell (scRNAseq) and spatial transcriptomics (ST) could give unprecedented molecular disease understanding at single-cell resolution. A more comprehensive analysis of the cell-specific ligand-receptor (L-R) interactions could provide pivotal information about signaling pathways in CKD and MASH. To achieve this, we created an integrative analysis framework in CKD and MASH from two available human cohorts.<h4>Results</h4>The analytical framework identified L-R pairs involved in cellular crosstalk in CKD and MASH. Interactions between cell types identified using scRNAseq data were validated by checking the spatial co-presence using the ST data and the co-expression of the communicating targets. Multiple L-R protein pairs identified are known key players in CKD and MASH, while others are novel potential targets previously observed only in animal models.<h4>Conclusion</h4>Our study highlights the importance of integrating different modalities of transcriptomic data for a better understanding of the molecular mechanisms. The combination of single-cell resolution from scRNAseq data, combined with tissue slide investigations and visualization of cell-cell interactions obtained through ST, paves the way for the identification of future potential therapeutic targets and developing effective therapies. |
| format | Article |
| id | doaj-art-110996befe404f2b8fc3f222e410c0c1 |
| institution | Kabale University |
| issn | 1932-6203 |
| language | English |
| publishDate | 2024-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj-art-110996befe404f2b8fc3f222e410c0c12025-01-08T05:33:32ZengPublic Library of Science (PLoS)PLoS ONE1932-62032024-01-01195e030285310.1371/journal.pone.0302853Identification of ligand and receptor interactions in CKD and MASH through the integration of single cell and spatial transcriptomics.Jaime MorenoLise Lotte GluudElisabeth D GalsgaardHenning HvidGianluca MazzoniVivek Das<h4>Background</h4>Chronic Kidney Disease (CKD) and Metabolic dysfunction-associated steatohepatitis (MASH) are metabolic fibroinflammatory diseases. Combining single-cell (scRNAseq) and spatial transcriptomics (ST) could give unprecedented molecular disease understanding at single-cell resolution. A more comprehensive analysis of the cell-specific ligand-receptor (L-R) interactions could provide pivotal information about signaling pathways in CKD and MASH. To achieve this, we created an integrative analysis framework in CKD and MASH from two available human cohorts.<h4>Results</h4>The analytical framework identified L-R pairs involved in cellular crosstalk in CKD and MASH. Interactions between cell types identified using scRNAseq data were validated by checking the spatial co-presence using the ST data and the co-expression of the communicating targets. Multiple L-R protein pairs identified are known key players in CKD and MASH, while others are novel potential targets previously observed only in animal models.<h4>Conclusion</h4>Our study highlights the importance of integrating different modalities of transcriptomic data for a better understanding of the molecular mechanisms. The combination of single-cell resolution from scRNAseq data, combined with tissue slide investigations and visualization of cell-cell interactions obtained through ST, paves the way for the identification of future potential therapeutic targets and developing effective therapies.https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0302853&type=printable |
| spellingShingle | Jaime Moreno Lise Lotte Gluud Elisabeth D Galsgaard Henning Hvid Gianluca Mazzoni Vivek Das Identification of ligand and receptor interactions in CKD and MASH through the integration of single cell and spatial transcriptomics. PLoS ONE |
| title | Identification of ligand and receptor interactions in CKD and MASH through the integration of single cell and spatial transcriptomics. |
| title_full | Identification of ligand and receptor interactions in CKD and MASH through the integration of single cell and spatial transcriptomics. |
| title_fullStr | Identification of ligand and receptor interactions in CKD and MASH through the integration of single cell and spatial transcriptomics. |
| title_full_unstemmed | Identification of ligand and receptor interactions in CKD and MASH through the integration of single cell and spatial transcriptomics. |
| title_short | Identification of ligand and receptor interactions in CKD and MASH through the integration of single cell and spatial transcriptomics. |
| title_sort | identification of ligand and receptor interactions in ckd and mash through the integration of single cell and spatial transcriptomics |
| url | https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0302853&type=printable |
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