Simeth, Jakob and Huettl, Paul and Schoen, Marian and Nozari, Zahra and Huttner, Michael and Schmidt, Tobias and Altenbuchinger, Michael and Spang, Rainer (2024) Virtual tissue expression analysis. BIOINFORMATICS, 40 (12): btae709. ISSN 1367-4803, 1367-4811
Full text not available from this repository. (Request a copy)Abstract
Motivation Bulk RNA expression data are widely accessible, whereas single-cell data are relatively scarce in comparison. However, single-cell data offer profound insights into the cellular composition of tissues and cell type-specific gene regulation, both of which remain hidden in bulk expression analysis.Results Here, we present tissueResolver, an algorithm designed to extract single-cell information from bulk data, enabling us to attribute expression changes to individual cell types. When validated on simulated data tissueResolver outperforms competing methods. Additionally, our study demonstrates that tissueResolver reveals cell type-specific regulatory distinctions between the activated B-cell-like (ABC) and germinal center B-cell-like (GCB) subtypes of diffuse large B-cell lymphomas (DLBCL).Availability and implementation R package available at https://github.com/spang-lab/tissueResolver (archived as 10.5281/zenodo.14160846). Code for reproducing the results of this article is available at https://github.com/spang-lab/tissueResolver-docs archived as swh:1:dir:faea2d4f0ded30de774b28e028299ddbdd0c4f89).Availability and implementation R package available at https://github.com/spang-lab/tissueResolver (archived as 10.5281/zenodo.14160846). Code for reproducing the results of this article is available at https://github.com/spang-lab/tissueResolver-docs archived as swh:1:dir:faea2d4f0ded30de774b28e028299ddbdd0c4f89).
| Item Type: | Article |
|---|---|
| Uncontrolled Keywords: | GENE-EXPRESSION; CELL-TYPE |
| Subjects: | 600 Technology > 610 Medical sciences Medicine |
| Divisions: | Medicine > Institut für Funktionelle Genomik > Lehrstuhl für Funktionelle Genomik (Prof. Oefner) Medicine > Institut für Funktionelle Genomik > Lehrstuhl für Statistische Bioinformatik (Prof. Spang) Informatics and Data Science > Department Computational Life Science > Lehrstuhl für Statistische Bioinformatik (Prof. Spang) |
| Depositing User: | Dr. Gernot Deinzer |
| Date Deposited: | 26 Nov 2025 08:54 |
| Last Modified: | 26 Nov 2025 08:54 |
| URI: | https://pred.uni-regensburg.de/id/eprint/64084 |
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