Dataset Information

Single-cell sequencing of individual retinal organoids reveals determinants of cell-fate heterogeneity.

ABSTRACT: With a critical need for more complete in vitro models of human development and disease, organoids hold immense potential. Their complex cellular composition makes single-cell sequencing of great utility; however, the limitation of current technologies to a handful of treatment conditions restricts their use in screens or studies of organoid heterogeneity. Here, we apply sci-Plex, a single-cell combinatorial indexing (sci)-based RNA sequencing (RNA-seq) multiplexing method to retinal organoids. We demonstrate that sci-Plex and 10× methods produce highly concordant cell-class compositions and then expand sci-Plex to analyze the cell-class composition of 410 organoids upon modulation of critical developmental pathways. Leveraging individual organoid data, we develop a method to measure organoid heterogeneity, and we identify that activation of Wnt signaling early in retinal organoid cultures increases retinal cell classes up to 6 weeks later. Our data show sci-Plex's potential to dramatically scale up the analysis of treatment conditions on relevant human models.

SUBMITTER: Tresenrider A

PROVIDER: S-EPMC10475847 | biostudies-literature | 2023 Aug

REPOSITORIES: biostudies-literature

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Single-cell sequencing of individual retinal organoids reveals determinants of cell-fate heterogeneity.

Tresenrider Amy A Sridhar Akshayalakshmi A Eldred Kiara C KC Cuschieri Sophia S Hoffer Dawn D Trapnell Cole C Reh Thomas A TA

Cell reports methods 20230809 8

With a critical need for more complete <i>in vitro</i> models of human development and disease, organoids hold immense potential. Their complex cellular composition makes single-cell sequencing of great utility; however, the limitation of current technologies to a handful of treatment conditions restricts their use in screens or studies of organoid heterogeneity. Here, we apply sci-Plex, a single-cell combinatorial indexing (sci)-based RNA sequencing (RNA-seq) multiplexing method to retinal orga ...[more]

PMID: 37671011

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Dataset Information

Single-cell sequencing of individual retinal organoids reveals determinants of cell-fate heterogeneity.

Publications

Single-cell sequencing of individual retinal organoids reveals determinants of cell-fate heterogeneity.

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