ArticleStem cells (Dayton, Ohio)2018
A Novel Approach to Single Cell RNA-Sequence Analysis Facilitates In Silico Gene Reporting of Human Pluripotent Stem Cell-Derived Retinal Cell Types.
Article in Stem cells (Dayton, Ohio), 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 50 papers.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
50 citing papers in PubMed.
- Identification and enrichment of human retinal organoid-derived red/green cone-competent precursors with enhanced axon dynamics.Stem cell research & therapy · 2026Article
- Mechano-stress endorsing heterogeneous lung cancer cells migration into confined channels and investigating tumor spheroids growth of confined space migrating cells.Scientific reports · 2026Article
- DIO3 coordinates photoreceptor development timing and fate stability in human retinal organoids.Genes & development · 2026Article
- Dynamic changes in mRNA isoform usage during human retinal development.bioRxiv : the preprint server for biology · 2025Article
- AAV2.7m8 transduction of stage 2 human retinal organoids induces highly variable responses in innate and inflammatory gene expression and cytokine secretion.Experimental eye research · 2025Article
- Metabolic stress and early cell death in photoreceptor precursor cells following retinal transplantation.Stem cell research & therapy · 2025Article
- Associating transcription factors to single-cell trajectories with DREAMIT.Genome biology · 2024Article
- Micromolded honeycomb scaffold design to support the generation of a bilayered RPE and photoreceptor cell construct.Bioactive materials · 2023Article
- Single-cell transcriptome analysis of xenotransplanted human retinal organoids defines two migratory cell populations of nonretinal origin.Stem cell reports · 2023Article
- Self-organization, quality control, and preclinical studies of human iPSC-derived retinal sheets for tissue-transplantation therapy.Communications biology · 2023Article
- Re-formation of synaptic connectivity in dissociated human stem cell-derived retinal organoid cultures.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Reliability of human retina organoid generation from hiPSC-derived neuroepithelial cysts.Frontiers in cellular neuroscience · 2023Article
- Single cell transcriptome analyses of the developing zebrafish eye- perspectives and applications.Frontiers in cell and developmental biology · 2023Review
- Review
- Article
- Boolean implication analysis of single-cell data predicts retinal cell type markers.BMC bioinformatics · 2022Article
- Systemic immunosuppression promotes survival and integration of subretinally implanted human ESC-derived photoreceptor precursors in dogs.Stem cell reports · 2022Article
- Human photoreceptors switch from autonomous axon extension to cell-mediated process pulling during synaptic marker redistribution.Cell reports · 2022Article
- Patterning and Development of Photoreceptors in the Human Retina.Frontiers in cell and developmental biology · 2022Review
- Neural differentiation of human retinal pigment epithelial cells on alginate/gelatin substrate.Molecular vision · 2022Article
Corrections and comments
- Erratum issuedErratum.2018
Authors and funding
16 authors.
Funding
Abstract
Cell type-specific investigations commonly use gene reporters or single-cell analytical techniques. However, reporter line development is arduous and generally limited to a single gene of interest, while single-cell RNA (scRNA)-sequencing (seq) frequently yields equivocal results that preclude definitive cell identification. To examine gene expression profiles of multiple retinal cell types derived from human pluripotent stem cells (hPSCs), we performed scRNA-seq on optic vesicle (OV)-like structures cultured under cGMP-compatible conditions. However, efforts to apply traditional scRNA-seq analytical methods based on unbiased algorithms were unrevealing. Therefore, we developed a simple, versatile, and universally applicable approach that generates gene expression data akin to those obtained from reporter lines. This method ranks single cells by expression level of a bait gene and searches the transcriptome for genes whose cell-to-cell rank order expression most closely matches that of the bait. Moreover, multiple bait genes can be combined to refine datasets. Using this approach, we provide further evidence for the authenticity of hPSC-derived retinal cell types. Stem Cells 2018;36:313-324.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.