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

Near-optimal sequence alignment

M Vingron1

  • 1Deutsches Krebsforschungszentrum (DKFZ), Abteilung Theoretische Bioinformatik, Heidelberg, Germany. m.vingron@dkfz-heidelberg.de

Current Opinion in Structural Biology
|June 1, 1996
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

Stochastics of Cellular Differentiation Explained by Epigenetics: The Case of T-Cell Differentiation and Functional Plasticity.

Scandinavian journal of immunology·2017
Same author

X-exome sequencing of 405 unresolved families identifies seven novel intellectual disability genes.

Molecular psychiatry·2015
Same author

Developments in CORG: a gene-centric comparative genomics resource.

Nucleic acids research·2006
Same author

Mathematical tree models for cytogenetic development in solid tumors.

Verhandlungen der Deutschen Gesellschaft fur Pathologie·2006
Same author

SVC: structured visualization of evolutionary sequence conservation.

Nucleic acids research·2005
Same author

Genome wide identification and classification of alternative splicing based on EST data.

Bioinformatics (Oxford, England)·2004
Same journal

Metabolic disruptions through a three-dimensional genomic lens.

Current opinion in structural biology·2026
Same journal

Collective variable design for biomolecular conformational dynamics.

Current opinion in structural biology·2026
Same journal

Polymer scaling in protein crowding: From dilute coils to semidilute meshes.

Current opinion in structural biology·2026
Same journal

Tuning the physicochemical properties of rationally designed protein-based biomolecular condensates.

Current opinion in structural biology·2026
Same journal

Editorial overview: Folding, binding and protein design.

Current opinion in structural biology·2026
Same journal

Macromolecular crowding reshapes the conformational landscapes of intrinsically disordered proteins: mechanisms, cellular contexts, and functional consequences.

Current opinion in structural biology·2026
See all related articles

Near-optimal sequence alignments, using advanced algorithms and statistics, help determine biologically valid alignments and assess their reliability. Statistical methods for suboptimal alignment scores reduce reliance on arbitrary gap-penalty choices.

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Sequence alignment is crucial for understanding biological relationships.
  • Traditional methods can be sensitive to parameter choices like gap penalties.
  • Assessing the reliability of alignment regions is essential for biological interpretation.

Purpose of the Study:

  • To highlight the utility of near-optimal alignments in sequence analysis.
  • To demonstrate how statistical assessment of suboptimal scores enhances alignment reliability.
  • To reduce the dependency of sequence alignments on gap-penalty selection.

Main Methods:

  • Utilizing recent advances in algorithmic techniques for sequence alignment.
  • Applying statistical methods to analyze suboptimal alignment scores.

Related Experiment Videos

  • Comparing near-optimal alignments with traditional alignment approaches.

    • Main Results:

    • Near-optimal alignments provide a robust tool for delineating biologically valid alignments.
    • Statistical assessment of suboptimal scores improves the reliability of alignment evaluations.
    • The choice of gap penalty has a diminished impact on alignment outcomes when using these statistical methods.

    Conclusions:

    • Near-optimal alignments are valuable for assessing the confidence of sequence alignment regions.
    • Statistical analysis of suboptimal alignments offers a more objective approach to sequence comparison.
    • These advancements improve the accuracy and interpretability of sequence alignment results in biological research.