Jove
Visualize
Contact Us

Related Experiment Videos

PRECISE: software for prediction of cis-acting regulatory elements.

L M Trindade1, R van Berloo, M Fiers

  • 1Graduate School of Experimental Plant Sciences, Laboratory of Plant Breeding, Department of Plant Sciences, Wageningen University, P.O. Box 386, 6700 AJ Wageningen, The Netherlands. luisa.trindade@wur.nl

The Journal of Heredity
|September 2, 2005
PubMed
Summary

A new tool, PRECISE, accurately predicts cis-acting elements involved in gene regulation. It identifies regulatory motifs in plant genomes, aiding research in plant biology and starch biosynthesis.

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

Construction of a strawberry breeding core collection to capture and exploit genetic variation.

BMC genomics·2023
Same author

Allelic variation for alpha-Glucan Water Dikinase is associated with starch phosphate content in tetraploid potato.

Plant molecular biology·2022
Same author

Effects of dietary fibre intake in chemotherapy-induced mucositis in murine model.

The British journal of nutrition·2020
Same author

QTL mapping in diploid potato by using selfed progenies of the cross <i>S. tuberosum</i> × <i>S. chacoense</i>.

Euphytica: Netherlands journal of plant breeding·2019
Same author

Development of a plant regeneration system based on friable embryogenic callus in the ornamental Alstroemeria.

Plant cell reports·2019
Same author

Two different <i>R</i> gene loci co-evolved with <i>Avr2</i> of <i>Phytophthora infestans</i> and confer distinct resistance specificities in potato.

Studies in mycology·2018
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

Area of Science:

  • Genetics and Molecular Biology
  • Bioinformatics
  • Plant Science

Background:

  • Gene expression regulation relies on transcription factors binding to cis-acting elements in promoter regions.
  • Predicting these cis-acting elements is crucial for understanding gene regulation.
  • Existing methods may lack user-friendliness or efficient filtering capabilities.

Purpose of the Study:

  • To introduce PRECISE (Prediction of REgulatory CIS-acting Elements), a novel computer program for predicting cis-acting elements.
  • To evaluate PRECISE's efficacy using empirical motif frequency tables and case studies in Arabidopsis.

Main Methods:

  • Development of the PRECISE software with a user-friendly interface.
  • Integration of tools for creating empirical motif frequency tables from genomic sequences.

Related Experiment Videos

  • Application of PRECISE to analyze upstream regions of Arabidopsis genes involved in starch metabolism and gibberellin-induced transcription.

    • Main Results:

    • PRECISE identified 15 out of 20 highly specific motifs homologous to known cis-acting elements regulating light, auxin, and abscisic acid in starch biosynthesis genes.
    • In a second case study, PRECISE successfully identified 6 out of 17 known gibberellin-responsive motifs in Arabidopsis.

    Conclusions:

    • The PRECISE software package demonstrates significant power and accuracy in predicting regulatory elements.
    • PRECISE facilitates the discovery of cis-acting elements involved in crucial plant biological processes like starch metabolism and hormone signaling.