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

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 microarray-based...

You might also read

Related Articles

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

Sort by
Same author

Preemptive cardioprotection with a small molecule in rodents that suppresses genes predictive of heart failure.

Science advances·2026
Same author

MC1 detects tau pathology in chronic traumatic encephalopathy.

Journal of neuropathology and experimental neurology·2026
Same author

Designing synthetic regulatory elements using the generative AI framework DNA-Diffusion.

Nature genetics·2025
Same author

Spatially resolved transcriptomics reveals a unique disease signature and potential biomarkers for chronic traumatic encephalopathy.

Journal of neuropathology and experimental neurology·2025
Same author

Haploinsufficient variants in SMAD5 are associated with isolated congenital heart disease.

HGG advances·2025
Same author

Publisher Correction: Ageing limits stemness and tumorigenesis by reprogramming iron homeostasis.

Nature·2025
Same journal

Correction to 'scSuperAnnotator: A platform for benchmarking comparison and visualizing automated cellular annotation methods for scRNA-seq data'.

Nucleic acids research·2026
Same journal

Correction to 'Differentiable partition function calculation for RNA'.

Nucleic acids research·2026
Same journal

Deployment of non-canonical splicing in tunicate genomes is mediated by divergent U2AF function and changing m6A modification in U1 and U6 snRNA.

Nucleic acids research·2026
Same journal

Bacillus subtilis DnaB forms multiple protein-protein interactions essential for DNA replication initiation.

Nucleic acids research·2026
Same journal

Multiple forms of protein-protein and DNA binding are exhibited by BrxC from the BREX phage restriction system.

Nucleic acids research·2026
Same journal

Biosynthesis of glycosylated 5-hydroxycytosine in the DNA of diverse viruses.

Nucleic acids research·2026
See all related articles

Related Experiment Video

Updated: May 10, 2026

mirMachine: A One-Stop Shop for Plant miRNA Annotation
06:16

mirMachine: A One-Stop Shop for Plant miRNA Annotation

Published on: May 1, 2021

miRspring: a compact standalone research tool for analyzing miRNA-seq data.

David T Humphreys1, Catherine M Suter

  • 1Molecular Genetics Division, Victor Chang Cardiac Research Institute, Darlinghurst, New South Wales, 2010, Australia and St Vincent's Clinical School, University of New South Wales, 2052, Australia.

Nucleic Acids Research
|June 19, 2013
PubMed
Summary
This summary is machine-generated.

Researchers developed miRspring, a bioinformatics tool for analyzing microRNA (miRNA) processing variants. This software simplifies complex miRNA data, enabling easier discovery of new miRNA variants like seed-isomiRs.

More Related Videos

A Complete Pipeline for Isolating and Sequencing MicroRNAs, and Analyzing Them Using Open Source Tools
09:29

A Complete Pipeline for Isolating and Sequencing MicroRNAs, and Analyzing Them Using Open Source Tools

Published on: August 21, 2019

Improving Small RNA-seq: Less Bias and Better Detection of 2'-O-Methyl RNAs
08:49

Improving Small RNA-seq: Less Bias and Better Detection of 2'-O-Methyl RNAs

Published on: September 16, 2019

Related Experiment Videos

Last Updated: May 10, 2026

mirMachine: A One-Stop Shop for Plant miRNA Annotation
06:16

mirMachine: A One-Stop Shop for Plant miRNA Annotation

Published on: May 1, 2021

A Complete Pipeline for Isolating and Sequencing MicroRNAs, and Analyzing Them Using Open Source Tools
09:29

A Complete Pipeline for Isolating and Sequencing MicroRNAs, and Analyzing Them Using Open Source Tools

Published on: August 21, 2019

Improving Small RNA-seq: Less Bias and Better Detection of 2'-O-Methyl RNAs
08:49

Improving Small RNA-seq: Less Bias and Better Detection of 2'-O-Methyl RNAs

Published on: September 16, 2019

Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • High-throughput sequencing reveals extensive microRNA (miRNA) processing variants.
  • Analyzing these variants requires specialized bioinformatics expertise and significant computational resources.
  • Current methods pose challenges for researchers without advanced technical capabilities.

Purpose of the Study:

  • To introduce miRspring, a user-friendly software solution for microRNA (miRNA) sequence profiling.
  • To enable visualization, calculation, and reporting of complex miRNA processing.
  • To facilitate the identification of novel miRNA variants and improve data analysis.

Main Methods:

  • Development of miRspring software with an index-compression algorithm.
  • Creation of small, portable research documents for miRNA data analysis.
  • Analysis of 73 public miRNA sequencing datasets.

Main Results:

  • miRspring effectively assesses quality parameters, miRNA cluster expression, and miRNA processing.
  • Identification of a novel class of miRNA variants termed seed-isomiRs.
  • ~30% of human miRBase entries potentially harbor seed-isomiRs.

Conclusions:

  • miRspring enhances the analysis of microRNA (miRNA) datasets, making complex data accessible.
  • The software aids in understanding miRNA biology through improved data interpretation.
  • miRspring is a valuable tool for researchers studying miRNA processing and variants.