Across the T-ALL subgroups, the predicted E-protein activity scores match well with the corresponding T-cell development stages, with attenuated activities in the subgroups associated with early development DN thymocytes (i.e., LMO2/LYL1 and HOXA), the gradual increase in the early cortical DP thymocyte subgroup (i.e., TLX1/TLX3 subgroup), and the highest activities in the late cortical DP TAL1 subgroup (Fig. 2D; Supplementary Table S3). Here, TAL1 is linked to acute lymphoblastic leukemia.