Fig. 1: CD8+ exhausted T cells are present in human pilocytic astrocytomas. | Nature Communications

Fig. 1: CD8+ exhausted T cells are present in human pilocytic astrocytomas.

From: Human single cell RNA-sequencing reveals a targetable CD8+ exhausted T cell population that maintains mouse low-grade glioma growth

Fig. 1

A UMAP visualization of T cells from human pLGG ([pilocytic astrocytoma, PA] PA set 1 and PA set 2 datasets; WHO grade 1 PA tumors) (n = 2 datasets, 11 tumors, GSE222850 and dbGAP phs001854.v1.p1), human pediatric HGG (pHGG [diffuse midline glioma, DMG] datasets; WHO grade 4 tumors) (n = 1 dataset, 5 tumors, GSE102130), and human adult HGG ([glioblastoma, GBM], aHGG1 and aHGG2 datasets; WHO grade 4 tumors) (n = 2 datasets, 7 tumors, Annotare [ArrayExpress] accession # E-MTAB-9435 and GSE138794) scRNAseq datasets. B Charts showing the percentage of T cells from human PA (PA set 1 and PA set 2 datasets; WHO grade 1 PA tumors) (n = 2 datasets, 11 tumors), human pediatric HGG (pHGG [diffuse midline glioma, DMG] datasets; WHO grade 4 tumors) (n = 1 dataset, 5 tumors), and human adult HGG ([glioblastoma, GBM], aHGG1 and aHGG2 datasets; WHO grade 4 tumors) (n = 2 datasets, 7 tumors) scRNAseq datasets. C CD8A expression in human PA (n = 2 datasets), pediatric HGG (n = 1 dataset) and adult HGG samples (n = 2 datasets). Each dot is an individual cell. D Table showing the P value, false discovery rate (FDR), and fold change of CD8A expression in human PA, pediatric and adult HGGs. Differential analyses were performed using gene specific analysis (GSA). E Dot plot showing the genes used to identify CD8+ exhausted T cells in human PA (n = 2) and HGG datasets (pediatric, n = 1; adult, n = 2). F UMAP visualization of scRNAseq data from five human PA specimens (PA1 [4463 cells], PA2 [4829 cells], PA3 [10404 cells], PA4 [7210 cells], PA5 [4636 cells]) based on tumor sample. G UMAP visualization of scRNAseq data from five human PA specimens (PA1, PA2, PA3, PA4, PA5) based on cell type. H UMAP visualization of scRNAseq data from five human PA specimens (PA1, PA2, PA3, PA4, PA5) color-coded by gene expression (CD8A, PDCD1, TIGIT, LAG3, TOX, CTLA4). I Dot plot showing the genes used to identify CD8+ exhausted T cells in human PA specimens. J Top 20 transcripts in CD8A+ PDCD1+ T cells relative to other T cells calculated with DESeq2 and filtered P values ≤ 0.05, false discovery rates ≤0.1, and log fold changes greater or equal to ±2. Differential analyses were performed using gene specific analysis (GSA).

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