Coexpression enhances cross-species integration of single-cell RNA sequencing across diverse plant species

Passalacqua, Michael John, Gillis, Jesse (June 2024) Coexpression enhances cross-species integration of single-cell RNA sequencing across diverse plant species. Nature Plants. ISSN 2055-0278 (Public Dataset)

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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 orthologues difficult, complicating integration. Here we demonstrate that coexpression can be used to trim many-to-many orthology families down to identify one-to-one 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
SWORD Depositor: CSHL Elements
Depositing User: CSHL Elements
Date: 27 June 2024
Date Deposited: 01 Jul 2024 13:26
Last Modified: 01 Oct 2024 17:47
PMCID: PMC11266096
Related URLs:
Dataset ID:
URI: https://repository.cshl.edu/id/eprint/41588

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