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

MicroRNAs01:22

MicroRNAs

21.5K
MicroRNA (miRNA) are short, regulatory RNA transcribed from introns—non-coding regions of a gene—or intergenic regions—stretches of DNA present between genes. Several processing steps are required to form biologically active, mature miRNA. The initial transcript, called primary miRNA (pri-mRNA), base-pairs with itself forming a stem-loop structure. Within the nucleus, an endonuclease enzyme, called Drosha, shortens the stem-loop structure into hairpin-shaped pre-miRNA. After...
21.5K
Ribosome Profiling02:24

Ribosome Profiling

3.6K
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...
3.6K

You might also read

Related Articles

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

Sort by
Same author

An Integrative Framework Identifies Cooperative Targeting of Host Pathways by Tick Salivary miRNAs.

Computational and structural biotechnology journal·2026
Same author

HERA: a web server for host element reference-based aligner.

Nucleic acids research·2026
Same author

Continental-wide prioritization of protected areas to address global and habitat-specific goals for avian biodiversity conservation.

Conservation biology : the journal of the Society for Conservation Biology·2026
Same author

RegRegSEA: a web server for regulatory region set enrichment analysis of epigenomic data.

Nucleic acids research·2026
Same author

Providing regular and frequent maps of losses and gains of farmland birds based on European monitoring data.

Conservation biology : the journal of the Society for Conservation Biology·2026
Same author

mRNA Sequencing of Limbal Epithelial Cells and mRNA/miRNA Profiling of Limbal Stromal Cells in <i>PAX6</i>-Related Congenital Aniridia.

Cells·2026

Related Experiment Video

Updated: Aug 25, 2025

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

7.5K

isomiRdb: microRNA expression at isoform resolution.

Ernesto Aparicio-Puerta1, Pascal Hirsch1, Georges P Schmartz1

  • 1Clinical Bioinformatics, Saarland University, 66123 Saarbrücken, Germany.

Nucleic Acids Research
|October 16, 2022
PubMed
Summary
This summary is machine-generated.

IsomiRs, variations of microRNAs (miRNAs), play key roles in biology and disease. A new database, isomiRdb, now offers comprehensive expression data for millions of isomiRs across human tissues and cell types.

More Related Videos

Lung microRNA Profiling Across the Estrous Cycle in Ozone-exposed Mice
07:07

Lung microRNA Profiling Across the Estrous Cycle in Ozone-exposed Mice

Published on: January 7, 2019

6.2K
Cerebrospinal Fluid MicroRNA Profiling Using Quantitative Real Time PCR
09:26

Cerebrospinal Fluid MicroRNA Profiling Using Quantitative Real Time PCR

Published on: January 22, 2014

15.5K

Related Experiment Videos

Last Updated: Aug 25, 2025

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

7.5K
Lung microRNA Profiling Across the Estrous Cycle in Ozone-exposed Mice
07:07

Lung microRNA Profiling Across the Estrous Cycle in Ozone-exposed Mice

Published on: January 7, 2019

6.2K
Cerebrospinal Fluid MicroRNA Profiling Using Quantitative Real Time PCR
09:26

Cerebrospinal Fluid MicroRNA Profiling Using Quantitative Real Time PCR

Published on: January 22, 2014

15.5K

Area of Science:

  • Genomics
  • Bioinformatics
  • Molecular Biology

Background:

  • Mature microRNA (miRNA) transcripts exhibit sequence and length variations, known as isomiRs.
  • IsomiRs show differential abundance across cell types, tissues, body fluids, and patient samples, indicating physiological and pathophysiological relevance.
  • Existing databases lack systematic collection and annotation of isomiR information, hindering research.

Purpose of the Study:

  • To develop isomiRdb, a comprehensive resource for isomiR expression data.
  • To provide a searchable database of isomiRs from diverse human biological samples.
  • To facilitate the identification and analysis of isomiRs and their expression patterns.

Main Methods:

  • Processed 42,499 human miRNA sequencing (miRNA-seq) datasets, totaling 5.9 × 10^11 sequencing reads.
  • Utilized miRMaster and sRNAbench for consistent analysis of miRNA sequencing data.
  • Compiled and annotated isomiR expression data from multiple sources.

Main Results:

  • isomiRdb provides online access to 90,483 abundant isomiRs (>1 RPM in at least 1% of samples) across 52 tissues and 188 cell types.
  • The database offers the full set of over 3 million detected isomiRs for download.
  • Users can query the database at sample, miRNA, or isomiR levels and generate interactive visualizations like heatmaps and violin plots.

Conclusions:

  • isomiRdb addresses the need for a comprehensive, annotated isomiR resource.
  • The database enables efficient exploration of isomiR presence, frequency, and expression patterns.
  • isomiRdb is a valuable, free, and publicly accessible tool for researchers studying miRNA biology and function.