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Cell Specific Gene Expression

Cell Specific Gene Expression

Multicellular organisms contain a variety of structurally and functionally distinct cell types, but the DNA in all the cells originated from the same parent cells. The differences in the cells can be attributed to the differential gene expression. Liver cells, whose functions include detoxification of blood, production of bile to metabolize fats, and synthesis of proteins essential for metabolism, must express a specific set of genes to perform their functions. Gene expression also varies with...

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Related Experiment Video

Updated: Nov 11, 2025

Cell Type-specific Gene Expression Profiling in the Mouse Liver

Cell Type-specific Gene Expression Profiling in the Mouse Liver

Published on: September 17, 2019

Leveraging Single-Cell RNA-seq Data to Uncover the Association Between Cell Type and Chronic Liver Diseases.

Xiangyu Ye¹, Julong Wei², Ming Yue³

¹Department of Epidemiology, Center for Global Health, School of Public Health, Nanjing Medical University, Nanjing, China.

Frontiers in Genetics

|March 25, 2021

Summary

This study integrated genome-wide association studies and single-cell RNA sequencing data to identify liver cell types involved in chronic liver diseases (CLDs). B cells and natural killer (NK) cells were associated with hepatocellular carcinoma (HCC).

Keywords:

GWAS cell type chronic liver diseases integrated analysis scRNA-seq

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Last Updated: Nov 11, 2025

Cell Type-specific Gene Expression Profiling in the Mouse Liver

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Published on: September 17, 2019

Isolation of Nuclei from Flash-Frozen Liver Tissue for Single-Cell Multiomics

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Mass Cytometry Analysis of Systemic and Local Immune Responses in Hepatocellular Carcinoma

Mass Cytometry Analysis of Systemic and Local Immune Responses in Hepatocellular Carcinoma

Published on: April 25, 2025

Area of Science:

Hepatology and Immunology
Genomics and Bioinformatics

Background:

Chronic liver diseases (CLDs) pathogenesis is complex due to the intricate liver microenvironment.
Genome-wide association studies (GWASs) highlight host genetics in CLD.
Single-cell RNA sequencing (scRNA-seq) offers high-resolution cellular insights.

Purpose of the Study:

To integrate GWAS and scRNA-seq data for CLD research.
To identify CLD-associated cell types and understand disease pathogenesis.
To uncover cell types linked to hepatocellular carcinoma (HCC) and cirrhosis.

Main Methods:

Downloaded and processed three GWAS and three scRNA-seq datasets for CLD.
Utilized RolyPoly and LDSC-cts tools for integrating GWAS and scRNA-seq data.
Performed specificity analysis using an independent scRNA-seq dataset.

Main Results:

Identified 10-17 cell types from 19,002-32,200 cells across scRNA-seq datasets.
Found significant associations between B cells and HCC in two datasets.
Identified natural killer (NK) cells as associated with HCC in one dataset.

Conclusions:

B cells and NK cells are identified as cell types related to HCC.
Further research and validation are recommended for these cell types.
No significant cell types were associated with cirrhosis in this analysis.