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Related Concept Videos

RNA-seq03:21

RNA-seq

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RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
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Cell Type-specific Gene Expression Profiling in the Mouse Liver
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Single-cell RNA-Seq analysis reveals dynamic trajectories during mouse liver development.

Xianbin Su1, Yi Shi1, Xin Zou1

  • 1Key Laboratory of Systems Biomedicine (Ministry of Education) and Collaborative Innovation Center of Systems Biomedicine, Shanghai Center for Systems Biomedicine, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China.

BMC Genomics
|December 6, 2017
PubMed
Summary

This study reveals the dynamic developmental paths of liver stem/progenitor cells (LSPCs) using marker-free single-cell RNA sequencing. It uncovers genetic controls guiding LSPC differentiation and maturation during mouse liver development.

Keywords:
CholangiocyteDevelopmental trajectoryFate decisionLiver stem/progenitor cellsSingle-cell RNA-Seq

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Area of Science:

  • Developmental Biology
  • Stem Cell Biology
  • Genomics

Background:

  • Fetal liver stem/progenitor cells (LSPCs) differentiation and maturation are not fully understood at single-cell resolution.
  • Limited known biomarkers hinder accurate trajectory tracking of LSPC development.

Purpose of the Study:

  • To characterize comprehensive transcriptional profiles of LSPCs during mouse liver development using a marker-free approach.
  • To elucidate the dynamic developmental trajectories and genetic control mechanisms of LSPCs.
  • To identify potential biomarkers for LSPC isolation.

Main Methods:

  • Marker-free single-cell RNA sequencing (scRNA-Seq) was applied to 507 cells from seven developmental stages (embryonic day 11.5 to postnatal day 2.5) and 52 cholangiocytes.
  • Transcriptomic profiling was used to identify LSPCs and map their developmental trajectories.
  • Comparative gene expression analysis was performed between LSPCs and cholangiocytes.

Main Results:

  • LSPCs were identified and their dynamic developmental trajectories mapped at single-cell resolution.
  • Contiguous but discrete genetic control of LSPC development was observed, mediated by transcription factors and signaling pathways.
  • Cholangiocyte gene expression profiles resembled early-stage LSPCs, suggesting a critical fate decision point.

Conclusions:

  • The study provides a valuable dataset and novel insights into LSPC fate decisions and transcriptional control.
  • Understanding the self-renewal, differentiation, and maturation processes of LSPCs is crucial for liver development research.
  • The marker-free approach facilitates systematic biomarker discovery for LSPC isolation.