| URL: | https://rnamedicine.shinyapps.io/FibroDB/ |
| Full name: | expression analysis of protein-coding and long non-coding RNA genes in fibrosis |
| Description: | FibroDB is a web database for accessing and exploring fibroblast expression data. The data for this database is derived from four studies profiled by Ilieva et al., 2021. FibroDB provides differential gene expression results, standardized and reprocessed datasets. |
| Year founded: | 2022 |
| Last update: | 2022-01-12 |
| Version: | v1.0 |
| Accessibility: |
Accessible
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| Country/Region: | Denmark |
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| University/Institution: | Aalborg University |
| Address: | Center for RNA Medicine, Department of Clinical Medicine, Aalborg University, DK-2450 Copenhagen, Denmark |
| City: | Copenhagen |
| Province/State: | |
| Country/Region: | Denmark |
| Contact name (PI/Team): | Shizuka Uchida |
| Contact email (PI/Helpdesk): | moc.liamg@aveiliabuylorim |
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FibroDB: Expression Analysis of Protein-Coding and Long Non-Coding RNA Genes in Fibrosis. [PMID: 35202087]
Most long non-coding RNAs (lncRNAs) are expressed at lower levels than protein-coding genes and their expression is often restricted to specific cell types, certain time points during development, and various stress and disease conditions, respectively. To revisit this long-held concept, we focused on fibroblasts, a common cell type in various organs and tissues. Using fibroblasts and changes in their expression profiles during fibrosis as a model system, we show that the overall expression level of lncRNA genes is significantly lower than that of protein-coding genes. Furthermore, we identified lncRNA genes whose expression is upregulated during fibrosis. Using dermal fibroblasts as a model, we performed loss-of-function experiments and show that the knockdown of the lncRNAs LINC00622 and LINC01711 result in gene expression changes associated with cellular and inflammatory responses, respectively. Since there are no lncRNA databases focused on fibroblasts and fibrosis, we built a web application, FibroDB, to further promote functional and mechanistic studies of fibrotic lncRNAs. |