Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Search research articles

Related Experiment Video

Updated: Mar 21, 2026

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

Published on: July 16, 2017

QuadBase2: web server for multiplexed guanine quadruplex mining and visualization.

Parashar Dhapola¹, Shantanu Chowdhury²

¹GNR Knowledge Center for Genome Informatics, CSIR-Institute of Genomics and Integrative Biology, New Delhi 110 025, India.

Nucleic Acids Research

|May 18, 2016

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

Correction: Rapid pan-cancer detection <i>via</i> label-free impedance profiling of cell-free DNA.

Lab on a chip·2026

Same author

Non-telomeric TRF2 regulates differentiation-associated genes to maintain neural stem cell identity.

The Journal of cell biology·2026

Same author

Correction: Tracking early mammalian organogenesis - prediction and validation of differentiation trajectories at whole organism scale.

Development (Cambridge, England)·2026

Same author

Telomeres control human telomerase (<i>TERT</i>) expression through non-telomeric TRF2.

eLife·2025

Same author

Rapid pan-cancer detection <i>via</i> label-free impedance profiling of cell-free DNA.

Lab on a chip·2025

Same author

Telomere length sensitive regulation of interleukin receptor 1 type 1 (IL1R1) by the shelterin protein TRF2 modulates immune signalling in the tumour microenvironment.

eLife·2024

QuadBase2 is a new web server for identifying DNA guanine quadruplex (G4) motifs. It offers user-friendly, genome-wide analysis of G4 structures across eukaryotes and prokaryotes.

Area of Science:

Genomics
Bioinformatics
Computational Biology

Background:

DNA guanine quadruplexes (G4s) are non-canonical secondary structures impacting genomic processes.
G4s are identified by specific nucleotide motifs, termed putative G4 (PG4) motifs.
Existing tools lack user-friendly, batch query, and genome-wide analysis capabilities for PG4 motifs.

Purpose of the Study:

To present QuadBase2, a reinvented web server for comprehensive PG4 motif analysis.
To provide tools for mining PG4 motifs across eukaryotes and prokaryotes with enhanced features.
To facilitate user-friendly, genome-wide exploration of G4 structures.

Main Methods:

Developed QuadBase2 with modules: EuQuad for eukaryotic orthologue analysis and ProQuad for prokaryotic genome-wide analysis.

More Related Videos

Single-molecule Manipulation of G-quadruplexes by Magnetic Tweezers

Single-molecule Manipulation of G-quadruplexes by Magnetic Tweezers

Published on: September 19, 2017

Single-Molecule Fluorescence Visualization of DNA Polymerase Dynamics at G-Quadruplexes

Single-Molecule Fluorescence Visualization of DNA Polymerase Dynamics at G-Quadruplexes

Published on: April 4, 2025

Related Experiment Videos

Last Updated: Mar 21, 2026

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

Published on: July 16, 2017

Single-molecule Manipulation of G-quadruplexes by Magnetic Tweezers

Single-molecule Manipulation of G-quadruplexes by Magnetic Tweezers

Published on: September 19, 2017

Single-Molecule Fluorescence Visualization of DNA Polymerase Dynamics at G-Quadruplexes

Single-Molecule Fluorescence Visualization of DNA Polymerase Dynamics at G-Quadruplexes

Published on: April 4, 2025

Integrated Ensembl Compara database for cross-eukaryotic gene mining.

Enhanced TetraplexFinder to handle large user-provided sequences (up to 20 MB).

Main Results:

QuadBase2 enables batch queries and genome-wide analysis of PG4 motifs in 178 eukaryotes and 1719 prokaryotes.
EuQuad module allows mining of PG4 motifs in orthologous genes across eukaryotes.
ProQuad module offers genome-wide PG4 motif mining and visualization via circular histograms.

Conclusions:

QuadBase2 is a comprehensive and user-friendly tool for mining PG4 motifs.
The server expands configurations and algorithms for G4 motif analysis.
QuadBase2 significantly advances the study and discovery of G4 structures in genomic research.