Extended Data Fig. 3: GATA2 driven mast cell gene signature is unmasked in developing T cells lacking L1. | Nature Immunology

Extended Data Fig. 3: GATA2 driven mast cell gene signature is unmasked in developing T cells lacking L1.

From: Intrinsically disordered domain of transcription factor TCF-1 is required for T cell developmental fidelity

Extended Data Fig. 3

a) Heatmaps depicting gene ontology enrichment in significantly differential gene sets (adjusted P<0.05, |Log2FoldChange|>1). P values are calculated using a hypergeometric test. b) Heatmap demonstrating differentially expressed genes (adjusted P <0.05) between wild type (WT) TCF-1 transduced DN1 and DN2s from Tcf7 cKO cells on OP9-DLL1 co-cultures at day 7. P-values are calculated by the Wald test and adjusted using the Benjamini and Hochberg method. c) Principle component plot of RNA-sequencing on 293T human cell line transduced with empty vector (EV), wild type (WT) human TCF-1, and an internal deletion mutant lacking the analogous L1 region of human TCF-1; human ΔL1 (upper panel). GSEA depicts the enrichment of genes in GSE22601_IMMATURE_CD4_SINGLE_POSITIVE VS_DOUBLE_POSITIVE_THYMOCYTE_UP gene set within genes upregulated in 293T cells with human TCF-1 vs. EV. d) Heatmap depicting transcription factors differentially upregulated in ΔL1 and WT TCF-1 transduced DN2s from Tcf7 cKO cells on OP9-DLL1 co-cultures at day 7 (adjusted P<0.05 and |Log2FoldChange|>1). P-values are calculated by the Wald test and adjusted using the Benjamini and Hochberg method. e) Bar plots depicting select gene expression (in RPKM) values in DN1 and DN2s from Tcf7 cKO cells on OP9-DLL1 co-cultures at day 7. Bars represent mean RPKM values, error bars represent Standard deviation (SD), and individual data points are represented with dots.

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