To further demonstrate the phenotype-guided and phenotype + cell-type-guided functionality, we applied GTM-decon to the same scRNA-seq data from breast cancer tumors using phenotypes (i.e., ER + and TNBC) and cell-type labels as the guides and then used the inferred topics to deconvolve the bulk TCGA breast tumor transcriptome data. Here, ESR1 is linked to breast cancer.