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. 2021 Aug 2;11:15612. doi: 10.1038/s41598-021-95122-3

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© The Author(s) 2021

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/.

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Cell type-specific differential expression analysis in two datasets. (A) Proportions (y-axis) of up- and down-regulated ctDEGs detected in the EyeGEx peripheral retina data. Colors show different test conditions: red for MGS2 vs. MGS1, and green for MGS4 vs. MGS1. Numbers above each bar indicate the number of detected ctDEGs for each comparison. (B) Volcano plots and effect size comparison of microglia-specific DEGs detected in the EyeGEx peripheral retina data. Significant ctDEGs were colored in red and annotated with gene names. (C) Proportions (y-axis) of up- and down-regulated ctDEGs for control vs. advanced AMD comparison in the UAB bulk RNA-seq data. Colors show different retina regions: blue for periphery, and yellow for macula. Numbers above each bar indicate the number of detected ctDEGs for each comparison. (D) Volcano plots and effect size comparison of rod-specific DEGs identified for control vs. advanced AMD comparison in the UAB bulk RNA-seq data. Significant ctDEGs were colored in red and annotated with gene names. (E) Comparison of p-values for cell type level and bulk level differential expression analysis for control vs. advanced AMD comparison in the UAB bulk RNA-seq data in macula rod cells.