Supplementary Figure 2: Overview of scRNA-seq data filtering and normalization. | Nature Immunology

Supplementary Figure 2: Overview of scRNA-seq data filtering and normalization.

From: The heterogeneity of human CD127+ innate lymphoid cells revealed by single-cell RNA sequencing

Supplementary Figure 2

a) Detection of biologically variable transcripts over technical noise with ERCC spike-in RNAs highlighted in black, human transcripts in blue (variable) or red (non-variable). Violin plots showing distributions of: b) Forward scattering (FSC), c) ratio of cell RNA to ERCC spike-in RNA (ERCC-ratio) and d) number of detected transcripts. e) PCA based on 847 variable transcripts, before (upper panel) and after (lower panel) batch normalization, cells colored either by surface phenotype (left panel) or donor (left panel) origin. Data were generated in three independent experiments with one tonsil donor each (total number of cells per cell population: ILC1, n=112; ILC2, n=143; ILC3, n=320; NK cells, n=73).

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