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

Rose: generating sequence families

J Stoye1, D Evers, F Meyer

  • 1Research Center for Interdisciplinary Studies on Structure Formation (FSPM), University of Bielefeld, Postfach, Germany.

Bioinformatics (Oxford, England)
|June 2, 1998
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

PAX5 P80R-mutated B-cell acute lymphoblastic leukemia with transformation to histiocytic sarcoma: clonal evolution assessment using NGS-based immunoglobulin clonality and mutation analysis.

Virchows Archiv : an international journal of pathology·2022
Same author

Halting targeted and collateral damage to red blood cells by the complement system.

Seminars in immunopathology·2021
Same author

The value of FDG-PET CT scans to evaluate bone marrow in haemato-oncological conditions.

The Netherlands journal of medicine·2019
Same author

Compared responses of poplar cuttings and in vitro raised shoots to short-term chilling treatments.

Plant cell reports·2019
Same author

The efficiency of therapeutic erythrocytapheresis compared to phlebotomy in relation to blood volume and delta-hematocrit: an evaluation in hereditary hemochromatosis polycythemia vera and secondary erythrocytosis.

Transfusion and apheresis science : official journal of the World Apheresis Association : official journal of the European Society for Haemapheresis·2013
Same author

Studies in rodents with the dipeptidyl peptidase-4 inhibitor vildagliptin to evaluate possible drug-induced pancreatic histological changes that are predictive of pancreatitis and cancer development in man.

Diabetes, obesity & metabolism·2012
Same journal

OmicsTransformer: Self-Supervised Masked Consistency and Uncertainty-Aware Fusion for Robust Multi-Omics Prediction.

Bioinformatics (Oxford, England)·2026
Same journal

Computational Tool Choice Impacts CRISPR Spacer-Proto spacer Detection.

Bioinformatics (Oxford, England)·2026
Same journal

ARISE: RNA-Anchored Shared-Edge Topology and Hierarchical Fusion for Spatial Multi-Omics Integration.

Bioinformatics (Oxford, England)·2026
Same journal

Interactive exploration of biobank-scale ancestral recombination graphs with Lorax.

Bioinformatics (Oxford, England)·2026
Same journal

PepMCP: A Graph-Based Membrane Contact Probability Predictor for Membrane-Lytic Antimicrobial Peptides.

Bioinformatics (Oxford, England)·2026
Same journal

ARGscape: A modular, interactive tool for manipulation of spatiotemporal ancestral recombination graphs.

Bioinformatics (Oxford, England)·2026
See all related articles

We developed Rose, a novel probabilistic model and software tool for simulating the evolution of RNA, DNA, and protein sequences. This tool aids in evaluating sequence alignment methods and understanding evolutionary processes.

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Evolutionary Biology

Background:

  • Probabilistic modeling of sequence evolution is crucial for understanding biological relationships.
  • Existing models may not fully capture the complexities of evolutionary processes, such as varying mutation rates.

Purpose of the Study:

  • To introduce a new probabilistic model for simulating the evolution of RNA, DNA, or protein-like sequences.
  • To present Rose, a software tool that implements this novel evolutionary model.
  • To facilitate the creation of artificial evolutionary histories and accurate multiple sequence alignments.

Main Methods:

  • Development of a probabilistic model simulating sequence evolution guided by an evolutionary tree.
  • Implementation of the model in a software tool named Rose.

Related Experiment Videos

  • Simultaneous logging of evolutionary history and generation of multiple sequence alignments during artificial evolution.
  • Incorporation of varying mutation rates to establish sequence motifs.

    • Main Results:

    • The Rose software generates data suitable for evaluating multiple sequence alignment algorithms.
    • Generated data aids in the prediction of phylogenetic relationships.
    • The tool is valuable for educational purposes in sequence evolution courses.
    • Rose supports the development of new models for studying evolutionary processes.

    Conclusions:

    • The Rose tool provides a robust platform for simulating sequence evolution.
    • Its outputs are valuable for benchmarking bioinformatics tools and advancing evolutionary studies.
    • The model's ability to incorporate varying mutation rates enhances its utility for motif discovery.