In the ‘stem cell features’ subtype of cHCC-CCA, tumors are characterized by spalt-like transcription factor 4 (SALL4) positivity, enrichment of progenitor-like gene signatures, activation of specific oncogenic signaling pathways (i.e., MYC and insulin-like growth factor), and signatures associated with poor clinical outcome. Here, SALL4 is linked to cholangiocarcinoma.