Single-cell RNA sequencing of human liver reveals hepatic stellate cell heterogeneity

•A cell atlas from the near-native transcriptome of >25,000 human liver cells is presented.•Hepatocytes were ordered along the portocentral axis to reveal previously undescribed gene expression patterns and zonated liver functions.•Two subpopulations of human hepatic stellate cells (HSCs) are reported, characterised by different spatial distribution in the native tissue.•Characteristic gene signatures of HSC subpopulations are suggestive of far-reaching functional differences.