Extended Data Fig. 7: Identifying cGEPs associated with disease phenotypes. | Nature Methods

Extended Data Fig. 7: Identifying cGEPs associated with disease phenotypes.

From: Reproducible single-cell annotation of programs underlying T cell subsets, activation states and functions

Extended Data Fig. 7

a, Associations of cGEP usage with tumor versus matched normal tissue. X-axis shows the regression coefficient. Y-axis shows the -Log10 FDR-corrected P-value (I.e. Q-value). b, Regression coefficients for tumor vs. normal samples for each tissue of origin. * denotes P < .05 for the corresponding coefficient. Cancer type abbreviations are: breast cancer (BC), esophageal cancer (ESCA), hepatocellular carcinoma (HCC), renal cell carcinoma (RC), thyroid carcinoma (THCA), and endometrial cancer (UCEC). c, d, Same as a but for association with Covid-19 status in the UK-Covid and COMBAT datasets. e, Scatter plot of regression coefficients from c and d. f, Same as a but comparing synovial T cells from patients with Rheumatoid Arthritis and Osteoarthritis.

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