Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

RNA-seq03:21

RNA-seq

12.1K
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...
12.1K
RNA Interference01:23

RNA Interference

28.1K
RNA interference (RNAi) is a process in which a small non-coding RNA molecule blocks the post-transcriptional expression of a gene by binding to its messenger RNA (mRNA) and preventing the protein from being translated.
This process occurs naturally in cells, often through the activity of genomically-encoded microRNAs. Researchers can take advantage of this mechanism by introducing synthetic RNAs to deactivate specific genes for research or therapeutic purposes. For example, RNAi could be used...
28.1K
RNA Stability01:53

RNA Stability

35.7K
Intact DNA strands can be found in fossils, while scientists sometimes struggle to keep RNA intact under laboratory conditions. The structural variations between RNA and DNA underlie the differences in their stability and longevity. Because DNA is double-stranded, it is inherently more stable. The single-stranded structure of RNA is less stable but also more flexible and can form weak internal bonds. Additionally, most RNAs in the cell are relatively short, while DNA can be up to 250 million...
35.7K
Alternative RNA Splicing02:18

Alternative RNA Splicing

25.2K
Alternative RNA splicing is the regulated splicing of exons and introns to produce different mature mRNAs from a single pre-mRNA. Unlike in constitutive splicing where a single gene produces a single type of mRNA, alternative splicing allows an organism to produce multiple proteins from a single gene and plays an important role in protein diversity.
There are five types of alternative RNA splicing that vary in the ways the pre-mRNA segments are removed or retained in the mature mRNA. The first...
25.2K
RNA Splicing01:32

RNA Splicing

60.6K
Splicing is the process by which eukaryotic RNA is edited before its translation into protein. The RNA strand transcribed from eukaryotic DNA is called the primary transcript. The primary transcripts that become mRNAs are called precursor messenger RNAs (pre-mRNAs). Eukaryotic pre-mRNA contains alternating sequences of exons and introns. Exons are nucleotide sequences that code for proteins, whereas introns are the non-coding regions. In RNA splicing, introns are removed and exons are bonded...
60.6K
Ribosomal RNA Synthesis02:53

Ribosomal RNA Synthesis

14.9K
Ribosome synthesis is a highly complex and coordinated process involving more than 200 assembly factors. The synthesis and processing of ribosomal components occurs not only in the nucleolus but also in the nucleoplasm and the cytoplasm of eukaryotic cells.
Ribosome biogenesis begins with the synthesis of 5S and 45S pre-rRNAs by distinct RNA polymerases. The primary transcripts are extensively processed and modified before they are bound and folded by ribosomal proteins and assembly factors,...
14.9K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Landscape of microRNA and target expression variation and covariation in single mouse embryonic stem cells.

Genome research·2026
Same author

A striosomal accumbens pathway drives stereotyped behavior through an aversive Esr1+ hypothalamic-habenula circuit.

Science advances·2025
Same author

Single-cell mRNA-regulation analysis reveals cell type-specific mechanisms of type 2 diabetes.

Nature communications·2025
Same author

Multi-layered dosage compensation of the avian Z chromosome by increased transcriptional burst frequency and elevated translational rates.

Nature communications·2025
Same author

Deciphering direct transcriptional effects of epigenetic compounds through large-scale new RNA profiling.

Nature communications·2025
Same author

Identification of proliferating neural progenitors in the adult human hippocampus.

Science (New York, N.Y.)·2025
Same journal

High-throughput measurements of protein domain functions using magnetic separation.

Nature protocols·2026
Same journal

Inducing physiological polarity and performing gene editing using CRISPR-Cas9 in human trophoblast organoids.

Nature protocols·2026
Same journal

Photocatalytic low-temperature defluorination of PTFE.

Nature protocols·2026
Same journal

Multimodal imaging and quantification of lanthanide chelate-labeled micro- and nanoplastics in plants.

Nature protocols·2026
Same journal

Facilitating structure-based drug discovery with an artificial intelligence-driven virtual screening platform.

Nature protocols·2026
Same journal

Yeast nuclei-mediated precise delivery of synthetic megabase-scale human DNA into mammalian embryos.

Nature protocols·2026
See all related articles

Related Experiment Video

Updated: Feb 4, 2026

Identification of Footprints of RNA:Protein Complexes via RNA Immunoprecipitation in Tandem Followed by Sequencing RIPiT-Seq
09:26

Identification of Footprints of RNA:Protein Complexes via RNA Immunoprecipitation in Tandem Followed by Sequencing RIPiT-Seq

Published on: July 10, 2019

11.2K

Small-seq for single-cell small-RNA sequencing.

Michael Hagemann-Jensen1, Ilgar Abdullayev1,2, Rickard Sandberg1,2,3

  • 1Department of Cell and Molecular Biology, Karolinska Institutet, Stockholm, Sweden.

Nature Protocols
|September 26, 2018
PubMed
Summary
This summary is machine-generated.

We developed Small-seq, a new method for sequencing small RNAs from single mammalian cells. This technique allows for molecular counting and is faster than traditional methods, enabling new research possibilities.

More Related Videos

Nuclei Isolation from Fresh Frozen Brain Tumors for Single-Nucleus RNA-seq and ATAC-seq
06:22

Nuclei Isolation from Fresh Frozen Brain Tumors for Single-Nucleus RNA-seq and ATAC-seq

Published on: August 25, 2020

13.5K
Single-cell RNA-Seq of Defined Subsets of Retinal Ganglion Cells
11:26

Single-cell RNA-Seq of Defined Subsets of Retinal Ganglion Cells

Published on: May 22, 2017

14.4K

Related Experiment Videos

Last Updated: Feb 4, 2026

Identification of Footprints of RNA:Protein Complexes via RNA Immunoprecipitation in Tandem Followed by Sequencing RIPiT-Seq
09:26

Identification of Footprints of RNA:Protein Complexes via RNA Immunoprecipitation in Tandem Followed by Sequencing RIPiT-Seq

Published on: July 10, 2019

11.2K
Nuclei Isolation from Fresh Frozen Brain Tumors for Single-Nucleus RNA-seq and ATAC-seq
06:22

Nuclei Isolation from Fresh Frozen Brain Tumors for Single-Nucleus RNA-seq and ATAC-seq

Published on: August 25, 2020

13.5K
Single-cell RNA-Seq of Defined Subsets of Retinal Ganglion Cells
11:26

Single-cell RNA-Seq of Defined Subsets of Retinal Ganglion Cells

Published on: May 22, 2017

14.4K

Area of Science:

  • Molecular Biology
  • Genomics
  • Cell Biology

Background:

  • Small RNAs regulate crucial cellular processes like gene expression and RNA modification.
  • Existing small RNA sequencing methods demand substantial cell material, hindering single-cell studies.
  • The need for sensitive, low-input methods for small RNA analysis is critical in biological research.

Purpose of the Study:

  • To introduce Small-seq, a novel ligation-based protocol for capturing and sequencing small RNAs from individual mammalian cells.
  • To provide a detailed, reproducible protocol for Small-seq using standard laboratory equipment.
  • To enable molecular counting of small RNAs for precise quantification in single-cell analyses.

Main Methods:

  • Small-seq utilizes a ligation-based approach for efficient small RNA capture.
  • The protocol is designed for use with standard reagents and instruments, ensuring accessibility.
  • A size-selection step can be incorporated to enrich for specific small RNA species like microRNAs (miRNAs).

Main Results:

  • Small-seq successfully captures a diverse range of small RNAs, including miRNAs, tRNA fragments, and snoRNAs.
  • The protocol allows for the molecular counting of captured small RNAs, providing quantitative data.
  • Libraries for sequencing can be prepared within 2-3 days from cell collection.

Conclusions:

  • Small-seq offers a powerful and accessible method for single-cell small RNA sequencing.
  • This technique overcomes the limitations of traditional methods by requiring minimal cell input.
  • Small-seq facilitates advanced research in cellular processes and gene regulation at the single-cell level.