University of Iowa: Institute for Vision Research

Spectacle and cellcuratoR were developed by an interdisciplinary team within the Institute for Vision Research at the University of Iowa. The Institute of Vision Research is deeply dedicated to treating and curing visual diseases. More information can be found at our website ivr.uiowa.edu

Powered by cellcuratoR



cellcuratoR is an R package for sharing interactive single-cell expression data from Seurat. Any single-cell RNA sequencing dataset processed with Seurat (v3) can be converted into objects interpretable by cellcuratoR. Code and documentation are available at github/drewvoigt10/cellcuratoR as well as animated instructions for navigating the user interface.

Spectacle Citation: if you use Spectacle or cellcuratoR for your research, please consider citing the manuscript that describes this platform:

Spectacle: An interactive resource for ocular single-cell RNA sequencing data analysis. Experimental Eye Research, September 2020. PMID: TBD



Dataset information

All Seurat-analyzed datasets (in .RData files) are publically available at https://oculargeneexpression.org/pages/methods_tech.html

If you use data from the following experiments in your research, please consider citing the relevant published works:


Molecular characterization of foveal versus peripheral human retina by single-cell RNA sequencing. Experimental Eye Research, May 2019. PMID: 31075224

Dataset name: retina_fov_vs_periph

Tissue: retina
Donors: 3 (paired)
Libraries: paired foveal and peripheral
Recovered Cells: 8217

Single-cell transcriptomics of the human retinal pigment epithelium and choroid in health and macular degeneration. Proceedings of the National Academy of Sciences, November 2019. PMID: 31712411

Dataset name: RPE_chor_unselected

Tissue: RPE and choroid, no pre-enrichment
Donors: 3 (paired)
Libraries: paired macular and peripheral
Recovered Cells: 4355

Dataset name: RPE_chor_CD31_selected

Tissue: RPE and choroid, CD31-enrichment of endothelial cells
Donors: 4 (paired)
Libraries: paired macular and peripheral
Recovered Cells: 14,234

Single-Cell RNA Sequencing in Human Retinal Degeneration Reveals Distinct Glial Cell Populations. Cells, February 2020. PMID: 32069977

Dataset name: retina_AIR_vs_control

Tissue: retina
Donors: 5 (paired), including one donor with autoimmune retinopathy (AIR)
Libraries: paired foveal and peripheral, one paired library from AIR patient
Recovered Cells: 23,429

Bulk and Single-Cell Gene Expression Analyses Reveal Aging Human Choriocapillaris Has Pro-Inflammatory Phenotype. Microvascular Research, June 2020. PMID: 32531351

Dataset name: CD31_choroid_infant_adult

Tissue: RPE and choroid, CD31-enrichment of endothelial cells
Donors: 8 (2 infant, 6 adults)
Libraries: 4 paired macular/peripheral, 4 paired CD31-positive/CD31-negative
Recovered Cells: 37,070