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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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Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
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Related Experiment Video

Updated: Apr 2, 2026

Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues
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Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues

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Scalable single-cell total RNA sequencing unifies coding and noncoding transcriptomics.

Alina Isakova1,2, Daniel Dan Liu3, Ivana Cvijović4

  • 1Department of Bioengineering, Stanford University, Stanford, CA, USA. isakova@stanford.edu.

Nature Biotechnology
|April 1, 2026
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Summary
This summary is machine-generated.

This study introduces a new method to profile all RNA types, including noncoding RNA, in single cells. This comprehensive approach reveals cell-specific gene expression patterns and regulatory mechanisms in the developing brain and other tissues.

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Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations
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Area of Science:

  • Genomics
  • Molecular Biology
  • Neuroscience

Background:

  • Current single-cell RNA sequencing (scRNA-seq) primarily analyzes polyadenylated transcripts.
  • This misses crucial regulatory information encoded in noncoding RNAs.
  • A comprehensive understanding of cellular identity and regulation requires broader RNA profiling.

Purpose of the Study:

  • To develop a generalizable framework for total RNA profiling in standard droplet-based single-cell platforms.
  • To capture a wide range of coding and noncoding RNAs within a unified pipeline.
  • To enable a deeper understanding of cellular identity and gene regulation at the atlas scale.

Main Methods:

  • Adaptation of total RNA profiling for droplet-based single-cell platforms.
  • Development of a unified pipeline for capturing diverse RNA biotypes.
  • Application to developing human brain, peripheral blood mononuclear cells, and dengue-infected hepatocytes.

Main Results:

  • Generated a comprehensive RNA atlas of the developing human brain, detailing cell-type and temporally specific expression programs across diverse RNA biotypes.
  • Identified microRNA (MIR137) dynamics in specific neuronal populations, linking its enrichment and target anticorrelation to neurodevelopmental disorders.
  • Characterized transcriptional modules combining coding and noncoding RNAs in human peripheral blood mononuclear cells.
  • Captured non-adenylated viral transcripts in infected hepatocytes, distinguishing infection states.

Conclusions:

  • The developed framework significantly expands the scope of single-cell RNA profiling to include noncoding RNAs.
  • This comprehensive approach provides novel insights into cell-type-specific gene regulation and cellular identity.
  • The findings have implications for understanding neurodevelopment, immune responses, and infectious diseases.