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

22.7K
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...
22.7K
MicroRNAs01:22

MicroRNAs

3.3K
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 the pre-miRNA...
3.3K

You might also read

Related Articles

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

Sort by
Same author

Enhanced Adverse-Event Detection and Drug-Event Relation Extraction from Clinical Notes.

medRxiv : the preprint server for health sciences·2026
Same author

Pretraining effective T5 generative models for clinical and biomedical applications.

PloS one·2026
Same author

Graph transformer with disease subgraph positional encoding for improved comorbidity prediction.

Quantitative biology (Beijing, China)·2026
Same author

Integrating text mining and knowledge graph to enhance biopharmaceutical process optimization.

PloS one·2026
Same author

KSMoFinder-knowledge graph embedding of proteins and motifs for predicting kinases of human phosphosites.

Bioinformatics advances·2025
Same author

KSMoFinder - Knowledge graph embedding of proteins and motifs for predicting kinases of human phosphosites.

bioRxiv : the preprint server for biology·2025
Same journal

Development of CypriSSR: a genome-wide, chromosome-level microsatellite database for multiple cyprinidae species.

Database : the journal of biological databases and curation·2026
Same journal

KitBase Expanded: An Integrated Genomic and Phenotypic Resource for 3,268 Fast-Neutron-Irradiated Rice Mutants.

Database : the journal of biological databases and curation·2026
Same journal

PhaLP 2.0: extending the community-oriented phage lysin database with a SUBLYME pipeline for metagenomic discovery.

Database : the journal of biological databases and curation·2026
Same journal

A similarity metric, rubric, and unified hierarchy for biomedical publication types and study designs.

Database : the journal of biological databases and curation·2026
Same journal

GUTAID: a curated database linking gut microbial antigens to autoimmune mechanisms.

Database : the journal of biological databases and curation·2026
Same journal

Rosetta Statements: simplifying FAIR knowledge graph construction with a user-centred approach.

Database : the journal of biological databases and curation·2026
See all related articles

Related Experiment Video

Updated: Nov 4, 2025

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

6.3K

emiRIT: a text-mining-based resource for microRNA information.

Debarati Roychowdhury1, Samir Gupta1, Xihan Qin2

  • 1Department of Computer and Information Sciences, University of Delaware, 101 Smith Hall, 18 Amstel Ave, Newark, DE 19716, USA.

Database : the Journal of Biological Databases and Curation
|May 28, 2021
PubMed
Summary
This summary is machine-generated.

This study introduces emiRIT, a text-mining tool for extracting microRNA (miRNA) information from scientific literature. It provides a user-friendly interface to access curated data on miRNA gene regulation, disease associations, and biological processes.

More Related Videos

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

2.7K
A Bioinformatics Pipeline to Accurately and Efficiently Analyze the MicroRNA Transcriptomes in Plants
06:34

A Bioinformatics Pipeline to Accurately and Efficiently Analyze the MicroRNA Transcriptomes in Plants

Published on: January 21, 2020

8.6K

Related Experiment Videos

Last Updated: Nov 4, 2025

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

6.3K
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

2.7K
A Bioinformatics Pipeline to Accurately and Efficiently Analyze the MicroRNA Transcriptomes in Plants
06:34

A Bioinformatics Pipeline to Accurately and Efficiently Analyze the MicroRNA Transcriptomes in Plants

Published on: January 21, 2020

8.6K

Area of Science:

  • Bioinformatics
  • Molecular Biology
  • Genomics

Background:

  • microRNAs (miRNAs) are critical gene regulators implicated in various diseases.
  • Efficient access to miRNA data is vital for research interpretation and hypothesis generation.
  • Current literature mining for miRNA information is fragmented and challenging.

Purpose of the Study:

  • To develop emiRIT, a text-mining resource for extracting and organizing miRNA information from the scientific literature.
  • To provide a user-friendly interface for accessing curated miRNA-gene regulation, miRNA-disease, and miRNA-pathway relationships.
  • To facilitate large-scale analysis of miRNA functions and roles in biological contexts.

Main Methods:

  • Collected 149,233 miRNA-PubMed ID pairs from Medline (1997-2020).
  • Utilized text-mining tools to extract biological entities and their relations to miRNAs from abstracts.
  • Normalized extracted entities and integrated them into a searchable database with a user interface.

Main Results:

  • The emiRIT database contains over 149,000 miRNA-related entries.
  • Key data categories include miRNA-gene regulation (69,152 relations), miRNA-disease (12,300 relations), miRNA-biological process/pathways (23,390 relations), and extracellular miRNAs (3,782 relations).
  • Case studies demonstrated emiRIT's utility in cancer research and information curation.

Conclusions:

  • emiRIT offers a comprehensive and accessible resource for miRNA information extraction from literature.
  • The tool supports researchers in understanding miRNA functions, disease associations, and regulatory networks.
  • emiRIT enables efficient navigation and analysis of miRNA data, advancing biological discovery.