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

An algorithm combining discrete and continuous methods for optical mapping.

R M Karp1, I Pe'er, R Shamir

  • 1Department of Electrical Engineering and Computer Science, University of California, Berkeley, CA 94720-1776, USA. karp@cs.berkeley.edu

Journal of Computational Biology : a Journal of Computational Molecular Cell Biology
|January 12, 2001
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

A reference model of circulating hematopoietic stem cells across the lifespan with applications to diagnostics.

Nature medicine·2025
Same author

Symptoms and management of cow's milk allergy: perception and evidence.

Frontiers in allergy·2024
Same author

Circadian clock gene disruption in white blood cells of patients with celiac disease.

Biochimie·2023
Same author

Pedi-R-MAPP: The development of a nutritional awareness tool for use in remote paediatric consultations using a modified Delphi consensus.

Clinical nutrition (Edinburgh, Scotland)·2022
Same author

ESPGHAN/ESPEN/ESPR/CSPEN guidelines on pediatric parenteral nutrition: Guideline development process for the updated guidelines.

Clinical nutrition (Edinburgh, Scotland)·2018
Same author

Intestinal anti-transglutaminase 2 immunoglobulin A deposits in children at risk for coeliac disease (CD): data from the PreventCD study.

Clinical and experimental immunology·2017
Same journal

GMSA: A Graph Matching and Point Cloud Registration-Based Method for Spatial Transcriptomics Data Alignment.

Journal of computational biology : a journal of computational molecular cell biology·2026
Same journal

Investigations on Multiple Protein Scaffold Filling.

Journal of computational biology : a journal of computational molecular cell biology·2026
Same journal

Cell Type Prediction for Single-Cell RNA Sequencing Utilizing Unsupervised Domain Adaptation and Semi-Supervised Learning.

Journal of computational biology : a journal of computational molecular cell biology·2026
Same journal

PPIGAN: Prediction of Protein-Protein Interactions Using Generative Adversarial Networks.

Journal of computational biology : a journal of computational molecular cell biology·2026
Same journal

Deep Structure-Enhanced Cell Clustering Model for Single-Cell RNA Sequencing Data.

Journal of computational biology : a journal of computational molecular cell biology·2026
Same journal

Asymmetric Drug-Drug Interaction Prediction Based on Generative Adversarial Networks and Knowledge Graph.

Journal of computational biology : a journal of computational molecular cell biology·2026
See all related articles

Optical mapping creates DNA restriction maps using fluorescence microscopy. This study presents a new algorithm to overcome real-world challenges like inaccurate measurements and faulty data, improving map accuracy.

Area of Science:

  • Molecular Biology
  • Genomics
  • Bioinformatics

Background:

  • Optical mapping is a technique for DNA restriction mapping.
  • Existing methods face challenges with data accuracy and molecule integrity.

Purpose of the Study:

  • To develop an algorithm for accurate DNA restriction map generation using optical mapping.
  • To address limitations of real-world optical mapping data.

Main Methods:

  • Combines continuous optimization with combinatorial algorithms.
  • Applies a nonuniform discretization approach to the data.
  • Analyzes partially digested DNA molecules using fluorescence microscopy.

Main Results:

  • Demonstrates encouraging results on both simulated and real experimental data.

Related Experiment Videos

  • Successfully addresses issues like false positives/negatives and inaccurate measurements.
  • Improves the reliability of DNA restriction maps generated via optical mapping.

    • Conclusions:

    • The developed algorithm effectively enhances DNA restriction mapping accuracy.
    • This approach offers a robust solution for real-world optical mapping data challenges.
    • Paves the way for more reliable genomic analysis using optical mapping.