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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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Mouse Adipose Tissue Collection and Processing for RNA Analysis
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Unveiling Tissue-Specific RNA Landscapes in Mouse Organs During Fasting and Feeding Using Nanopore Direct RNA

Chengfei Jiang1, Ping Li1, Haiming Cao1

  • 1Cardiovascular Branch, National Heart, Lung and Blood Institute, National Institutes of Health, Bethesda, MD, 20892, USA.

Advanced Science (Weinheim, Baden-Wurttemberg, Germany)
|December 16, 2024
PubMed
Summary

This study reveals novel RNA transcripts and tissue-specific gene regulation in mouse organs using direct RNA sequencing. These findings offer new insights into organ function and metabolic specialization.

Keywords:
ATAC‐SeqRNA m6A modificationenergy metabolismnanopore direct RNA sequencingpoly(A) tail length

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Spatial Profiling of Protein and RNA Expression in Tissue: An Approach to Fine-Tune Virtual Microdissection
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Area of Science:

  • Molecular Biology
  • Genomics
  • Mammalian Physiology

Background:

  • Tissue-specific RNA landscapes are crucial for understanding organ function.
  • Short-read RNA sequencing has limitations in resolving diverse transcripts and gene annotations.

Purpose of the Study:

  • To comprehensively analyze RNA landscapes in major mouse organs under fasting and fed conditions.
  • To overcome limitations of short-read sequencing by employing an integrative approach.

Main Methods:

  • Utilized nanopore direct RNA sequencing (DRS), ATAC-Seq, and short-read RNA-seq.
  • Analyzed RNA landscapes across multiple mouse organs under contrasting caloric states.
  • Performed comparative analyses of transcript isoforms and regulations across organs.

Main Results:

  • Discovered tens of thousands of novel transcripts and hundreds of tissue-specific genes.
  • Identified previously unresolved layers of regulated pathways within organs.
  • Revealed dynamic, tissue-specific changes in poly(A) tail length and m6A modifications.

Conclusions:

  • The findings uncover new layers of gene regulation impacting organ function and metabolic specialization.
  • Direct RNA sequencing provides deeper insights into transcriptomic complexity and regulation.
  • This research advances our understanding of the metabolic basis of organ function.