Classification | Methods | Major Findings | Reference |
---|---|---|---|
Liver development | scRNA-seq | Hepatobiliary hybrid progenitor (HHyP) cells at the ductal plate were found in human fetal liver, which own a hybrid transcriptome of both hepatic and biliary lineage. | Segal et al. 2019 |
scRNA-seq ST-seq | A comprehensive map of primitive liver cell lineage was generated from the endoderm and mesoderm. | Lotto et al. 2020 | |
scRNA-seq | The whole transcriptome of murine liver was sequenced and analyzed. | Halpern et al. 2017) | |
ST-seq | Spatial heterogeneity in each liver lobule shaped by differential transcriptomes along gradient was confirmed. | Hildebrandt et al. 2021 | |
Spatial cell sorting scRNA-seq proteomics /phosphoproteomics | Tyrosine phosphorylation is a unique zonated process and Tie1 phosphorylation acts specifically around central vein area as a signature of LSECs located around central vein. | Inverso et al. 2021 | |
scRNA-seq | Various previously unknown subpopulations of LSECs, KCs and hepatocytes were found. Moreover, a TROP2int progenitor population was suggested. | Aizarani et al. 2019 | |
scRNA-seq | Two subpopulations of HSCs were found. One population mainly produce collagen and are associated with liver fibrosis. | Dobie et al. 2019 | |
scRNA-seq | Two subpopulations of KCs (a major CD206loESAM-population (KC1) and a minor CD206hiESAM+ population (KC2)) were suggested. | Blériot et al. 2021 | |
scCITE-seq 3D reconstruction | This study suggested that there is only one population of KCs and the second population of KCs in previous study might be LSECs/KCs doublets. | Guilliams et al. 2022 | |
ST-seq ATAC-seq | ZNRF3 and RNF43 fine-tune activity of Wnt signaling-mediated proliferation in Axin2+ hepatocytes, thereby prevent hepatocytes proliferation but maintain metabolic zonation. This study suggested that Axin2+ hepatocytes are not likely hepatocyte progenitor cells. | Sun et al. 2021 | |
Liver regeneration | scRNA-seq bulk RNA-seq ST-seq | Hepatocytes throughout the lobule proliferate almost equally to generate missing cells under mitotic pressure. Along this process, NPCs serve as zone-specific cues to instruct regeneration. | Ben-Moshe et al. 2022 |
scRNA-seq | A TROP2int progenitor population from normal human liver tissue was identified, which have a potential to form liver organoid in vitro. | Aizarani et al. 2019 | |
scRNA-seq | LSECs contribute to hepatocytes regeneration via a Tie2/Wnt signaling pathway. | Inverso et al. 2021) | |
Seq-Scope | Spatial single-cell analysis of hepatocytes confirmed hepatocyte zonation and NPCs patial distribution was identified. Antioxidant genes in murine liver with early onset liver failure display zonated periportal-expression profile. With dead hepatocytes as the center, inflammatory macrophages and hep_injured cells are arranged around the periphery in turn. | Cho et al. 2021 | |
scRNA-seq | Mice with acute liver injury present with new subpopulations of HSCs, LSECs, KCs, monocytes, neutrophils, and acute liver injury can be alleviated by inhibition of MYC. | Kolodziejczyk et al. 2020 | |
Liver disease | ST-seq | Two populations of fibroblasts (Sparcl1+ population and Gja4+ population) were indicated. Sparcl1+ population is associated with reduced vascular invasion and increased patient survival. | Wang et al., 2021 |
scCITE-seq sn-seq ST-seq | A spatial proteogenomic atlas of the healthy and obese human and murine liver was generated. A population of lipid-associated macrophages (LAMs) at the bile ducts were identified, which was induced by local lipid exposure in steatotic liver. The development of KCs is dependent on their interaction with HSCs through the evolutionarily conservative ALK1-BMP9/10 axis. | (Guilliams et al. 2022 | |
ST-seq scRNA-seq | Tumor capsule prevents the infiltration of immune cells and thus redistributes immune cells around cancer. Moreover, tumor capsule affects intratumor spatial cluster continuity and transcriptome diversity. | (Wu et al., 2021 | |
scRNA-seq | Region-specific changes of LSECs in liver cirrhosis were indicated. Genes associated with capillarization of LSECs and extracellular matrix are mostly upregulated in LSECs of Zone 3. In addition, LSECs of Zone 3 also showed a decrease expression of endocytic receptor in cirrhotic mice. NO production-related transcription factors such as Klf2, Klf4 and AP-1 are down-regulated in LSECs of all zones in cirrhotic mice, indicating increased intrahepatic vascular resistance. | (Su et al. 2021 |