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

Improving Translational Accuracy02:07

Improving Translational Accuracy

Base complementarity between the three base pairs of mRNA codon and the tRNA anticodon is not a failsafe mechanism. Inaccuracies can range from a single mismatch to no correct base pairing at all. The free energy difference between the correct and nearly correct base pairs can be as small as 3 kcal/ mol. With complementarity being the only proofreading step, the estimated error frequency would be one wrong amino acid in every 100 amino acids incorporated. However, error frequencies observed in...
Improving Translational Accuracy02:07

Improving Translational Accuracy

Base complementarity between the three base pairs of mRNA codon and the tRNA anticodon is not a failsafe mechanism. Inaccuracies can range from a single mismatch to no correct base pairing at all. The free energy difference between the correct and nearly correct base pairs can be as small as 3 kcal/ mol. With complementarity being the only proofreading step, the estimated error frequency would be one wrong amino acid in every 100 amino acids incorporated. However, error frequencies observed in...
Next-generation Sequencing03:00

Next-generation Sequencing

The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features.
In-situ Hybridization02:31

In-situ Hybridization

In situ hybridization (ISH) is a technique used to detect and localize specific DNA or RNA molecules in cells, tissue, or tissue sections using a labeled probe. The technique was first used in 1969 for the investigation of nucleic acids. It is currently an essential tool in scientific research and clinical settings, especially for diagnostic purposes.
Types of probes and labels
A probe is a complementary strand of DNA or RNA that binds to corresponding nucleotide sequences in a cell. Many...
Sanger Sequencing01:57

Sanger Sequencing

DNA sequencing is a fundamental technique that is routinely used in the biological sciences. This method can be applied to a range of questions at different scales - from the sequencing of a cloned DNA fragment or the study of a mutation in a gene up to whole-genome sequencing. However, despite the widespread use of sequencing today, it was not until 1977 that Fredrick Sanger and his collaborators developed the chain-termination method to decode DNA sequences. It relies on the separation of a...
DNA Microarrays02:34

DNA Microarrays

Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...

You might also read

Related Articles

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

Sort by
Same author

Pathogenicity prediction for noncanonical splice-altering variants based on multimodal feature fusion.

Briefings in bioinformatics·2026
Same author

Application of Graphene Dry Electrode in 512-Lead EEG Cap and Real-Time Monitoring EEG System.

ACS applied materials & interfaces·2026
Same author

Prediction of minimum inhibitory concentration of antibacterial peptides using geometric graph networks and dynamic loss functions.

Briefings in bioinformatics·2026
Same author

scMSAC Assigns Single-Cell Multi-Omics Data at the Multi-Modal Cluster via Subgraph Attention Autoencoder.

IEEE transactions on computational biology and bioinformatics·2026
Same author

Dissecting spatial patterning and signaling with directional diffusion in spatial multi-omics.

Proceedings of the National Academy of Sciences of the United States of America·2026
Same author

Radiosensitivity Prediction of Tumor Patient Based on Deep Fusion of Pathological Images and Genomics.

Bioengineering (Basel, Switzerland)·2026
Same journal

Correction: Reis et al. Bioinks Enriched with ECM Components Obtained by Supercritical Extraction. <i>Biomolecules</i> 2022, <i>12</i>, 394.

Biomolecules·2026
Same journal

Correction: Kim, K.-H.; Yoo, B.C. Gintonin as a Lysophosphatidic Acid-Enriched GPCR Ligand System: Molecular Architecture and Receptor Pharmacology in <i>Panax ginseng</i>. <i>Biomolecules</i> 2026, <i>16</i>, 465.

Biomolecules·2026
Same journal

Correction: Bastyte et al. The Association of Vitamin D Receptor Gene Polymorphisms with Vitamin D, Total IgE, and Blood Eosinophils in Patients with Atopy. <i>Biomolecules</i> 2024, <i>14</i>, 212.

Biomolecules·2026
Same journal

AtHSPR Plays a Positive Role in Arabidopsis Resistance Against <i>Pseudomonas syringae</i> pv. <i>tomato</i> DC3000 by Interacting with TOP1.

Biomolecules·2026
Same journal

CYTH4 Facilitates Renal Cell Carcinoma via Enhancing Proliferation and Likely Immune Evasion.

Biomolecules·2026
Same journal

Integrated Immune-Gut Profiling Identifies an Exploratory Pediatric Inflammatory Intestinal Profile Associated with Food-Specific IgG Reactivity.

Biomolecules·2026
See all related articles
  1. Home
  3. Idualg4: A Dual-channel Deep Learning Framework For Predicting In Vivo G-quadruplexes.
  1. Home
  3. Idualg4: A Dual-channel Deep Learning Framework For Predicting In Vivo G-quadruplexes.

Related Experiment Video

In Vitro Chemical Mapping of G-Quadruplex DNA Structures by Bis-3-Chloropiperidines
05:32

In Vitro Chemical Mapping of G-Quadruplex DNA Structures by Bis-3-Chloropiperidines

Published on: May 12, 2023

iDualG4: A Dual-Channel Deep Learning Framework for Predicting In Vivo G-Quadruplexes.

Haitao Li1, Li Dong2, Yue Jia2

  • 1Key Laboratory of Intelligent Computing and Signal Processing, School of Artificial Intelligence, Anhui University, 111 Jiulong Road, Hefei 230601, China.

Biomolecules
|May 27, 2026

View abstract on PubMed

Summary
This summary is machine-generated.

iDualG4 predicts G-quadruplexes (G4s) in the genome using only DNA sequence. This interpretable deep learning tool bypasses costly epigenetic assays, improving G4 prediction accuracy and accessibility.

Keywords:
G-quadruplexdual-channel networkepigenetic regulationinterpretability

More Related Videos

Aptamer-Based Target Detection Facilitated by a 3-Stage G-Quadruplex Isothermal Exponential Amplification Reaction
03:38

Aptamer-Based Target Detection Facilitated by a 3-Stage G-Quadruplex Isothermal Exponential Amplification Reaction

Published on: October 6, 2022

Multiplex Detection of Gene Expression in the Intact Drosophila Brain Using Expansion-Assisted Iterative Fluorescence In Situ Hybridization
09:05

Multiplex Detection of Gene Expression in the Intact Drosophila Brain Using Expansion-Assisted Iterative Fluorescence In Situ Hybridization

Published on: May 2, 2025

Related Experiment Videos

In Vitro Chemical Mapping of G-Quadruplex DNA Structures by Bis-3-Chloropiperidines
05:32

In Vitro Chemical Mapping of G-Quadruplex DNA Structures by Bis-3-Chloropiperidines

Published on: May 12, 2023

Aptamer-Based Target Detection Facilitated by a 3-Stage G-Quadruplex Isothermal Exponential Amplification Reaction
03:38

Aptamer-Based Target Detection Facilitated by a 3-Stage G-Quadruplex Isothermal Exponential Amplification Reaction

Published on: October 6, 2022

Multiplex Detection of Gene Expression in the Intact Drosophila Brain Using Expansion-Assisted Iterative Fluorescence In Situ Hybridization
09:05

Multiplex Detection of Gene Expression in the Intact Drosophila Brain Using Expansion-Assisted Iterative Fluorescence In Situ Hybridization

Published on: May 2, 2025

Area of Science:

  • Genomics
  • Computational Biology
  • Molecular Biology

Background:

  • G-quadruplexes (G4s) are crucial non-canonical DNA structures involved in genomic stability and gene regulation.
  • While many potential G4-forming sequences (PQSs) exist, only a few form stable G4s in vivo due to chromatin complexity.
  • Current deep learning methods for G4 prediction rely on expensive, cell-specific epigenetic data, limiting their application.

Purpose of the Study:

  • To develop an interpretable deep learning framework, iDualG4, for predicting in vivo G-quadruplex formation.
  • To eliminate the need for cell-specific epigenetic assays by inferring features from DNA sequence alone.
  • To improve the accuracy and accessibility of G4 prediction for clinical and research applications.

Main Methods:

  • iDualG4 utilizes a dual-channel deep learning architecture.
  • It incorporates a pretrained Enformer module to infer epigenomic proxy features directly from DNA sequence.
  • The framework integrates inferred epigenomic features with local sequence information for prediction.

    • Main Results:

    • iDualG4 significantly outperforms existing methods in predicting G4 formation across multiple cell lines.
    • The model demonstrates exceptional performance on imbalanced datasets, achieving an AUPR of 0.981 on K562 cells.
    • DeepSHAP analysis confirms the interpretability of iDualG4, highlighting its predictive mechanisms.

    Conclusions:

    • iDualG4 provides a highly accurate and interpretable tool for predicting in vivo G4 formation without requiring additional sequencing data.
    • The framework offers a novel computational approach to understand the interplay between DNA sequence and epigenetic factors in G4 formation.
    • iDualG4 enhances the broader applicability of G4 prediction in diverse biological contexts.