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 Experiment Videos

FastR: fast database search tool for non-coding RNA.

Vineet Bafna1, Shaojie Zhang

  • 1Department of Computer Science and Engineering, University of California at San Diego, La Jolla, 92093-0114, USA. vbafna@cs.ucsd.edu

Proceedings. IEEE Computational Systems Bioinformatics Conference
|February 2, 2006
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

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

Sort by
Same author

Tailoring Solvation Sheaths and Interfacial Chemistry: A Review of Electrolyte Engineering for Highly Reversible Aqueous Zinc-Iodine Batteries.

Molecules (Basel, Switzerland)·2026
Same author

Characteristics of Patients with Acute Respiratory Failure in Obesity Hypoventilation Syndrome in the Intensive Care Unit: A Retrospective Cohort Study.

Respiratory medicine·2026
Same author

From in silico screening to mechanism: computational advances in developing anti-allergic agents for food allergy.

Critical reviews in food science and nutrition·2026
Same author

Text Sequence Stimulation for High-Speed and Comfortable SSVEP-BCI.

Cyborg and bionic systems (Washington, D.C.)·2026
Same author

Association of Palliative Care Consultation with Outcomes after Out-of-Hospital Cardiac Arrest.

The American journal of hospice & palliative care·2026
Same author

DipSkmer: Reference-free population genomics with diploid genome skims.

bioRxiv : the preprint server for biology·2026
Same journal

A Two-Step Approach for Clustering Proteins based on Protein Interaction Profile.

Proceedings. IEEE Computational Systems Bioinformatics Conference·2008
Same journal

Proceedings of 2005 IEEE Computational Systems Bioinformatics Conference. August 8-11, 2005. Stanford, California, USA.

Proceedings. IEEE Computational Systems Bioinformatics Conference·2007
Same journal

Fractal genomics modeling: a new approach to genomic analysis and biomarker discovery.

Proceedings. IEEE Computational Systems Bioinformatics Conference·2006
Same journal

Gene Ontology friendly biclustering of expression profiles.

Proceedings. IEEE Computational Systems Bioinformatics Conference·2006
Same journal

Comparative analysis of gene sets in the Gene Ontology space under the multiple hypothesis testing framework.

Proceedings. IEEE Computational Systems Bioinformatics Conference·2006
Same journal

AZuRE, a scalable system for automated term disambiguation of gene and protein names.

Proceedings. IEEE Computational Systems Bioinformatics Conference·2006
See all related articles

Researchers developed a fast and accurate computational method to discover new functional non-coding RNAs (ncRNAs). This approach efficiently identifies structural RNA homologs in genomic databases, advancing the field of ncRNA research.

Area of Science:

  • Genomics
  • Bioinformatics
  • Molecular Biology

Background:

  • The discovery of novel non-coding RNAs (ncRNAs) is a significant area in modern biology.
  • Functional ncRNAs, with catalytic and regulatory roles, are hypothesized to be abundant but remain largely undiscovered.
  • Developing computational tools for ncRNA identification is crucial due to their weaker genomic signals compared to protein-coding genes.

Purpose of the Study:

  • To develop an efficient computational method for identifying structural RNA homologs.
  • To address the challenge of detecting ncRNAs with weaker inherent genomic signals.
  • To improve the speed and accuracy of ncRNA discovery in large genomic databases.

Main Methods:

  • The study focuses on comparative methods for ncRNA detection.

Related Experiment Videos

  • A novel approach utilizes structural filters to efficiently search genomic databases for RNA sequence and structural similarity.
  • The method is designed to retain true homologs while eliminating irrelevant database entries.

    • Main Results:

    • The developed method can search a typical bacterial genomic database in minutes on a standard PC.
    • The approach demonstrates high sensitivity and specificity in identifying structural RNA homologs.
    • Performance is two orders of magnitude better than existing software for the same problem.

    Conclusions:

    • This computational method significantly enhances the efficiency and accuracy of discovering functional non-coding RNAs.
    • The structural filtering approach offers a promising solution for the challenges in ncRNA identification.
    • The tool accelerates the exploration of the functional ncRNA landscape in genomics.