Passalacqua, Michael John, Gillis, Jesse (November 2023) Coexpression enhances cross-species integration of scRNA-seq across diverse plant species. bioRxiv. (Submitted)
Abstract
Single-cell RNA sequencing is increasingly used to investigate cross-species differences driven by gene expression and cell-type composition in plants. However, the frequent expansion of plant gene families due to whole genome duplications makes identification of one-to-one orthologs difficult, complicating integration. Here, we demonstrate that coexpression can be used to identify non-orthologous gene pairs with proxy expression profiles, improving the performance of traditional integration methods and reducing barriers to integration across a diverse array of plant species.
| Item Type: | Paper |
|---|---|
| Subjects: | bioinformatics bioinformatics > genomics and proteomics organism description > plant |
| CSHL Authors: | |
| Communities: | CSHL labs > Gillis Lab School of Biological Sciences > Publications |
| SWORD Depositor: | CSHL Elements |
| Depositing User: | CSHL Elements |
| Date: | 30 November 2023 |
| Date Deposited: | 20 Dec 2023 20:27 |
| Last Modified: | 29 Feb 2024 18:06 |
| PMCID: | PMC10705427 |
| Related URLs: | |
| URI: | https://repository.cshl.edu/id/eprint/41353 |
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