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Related Concept Videos

Conservative Site-specific Recombination and Phase Variation02:53

Conservative Site-specific Recombination and Phase Variation

Because the DNA segments are cut and reorganized in a direction-specific manner, site-specific recombination has emerged as an efficient genetic engineering technique. Flippase and Cyclization recombinases or Flp and Cre, respectively, are two members of the tyrosine recombinase family derived from bacteriophages, that are used to mediate site-specific DNA insertions, deletions, and targeted expression of proteins in mammalian cell lines.
The recognition sites for Cre recombinase called LoxP...
Homologous Recombination02:31

Homologous Recombination

The basic reaction of homologous recombination (HR) involves two chromatids that contain DNA sequences sharing a significant stretch of identity. One of these sequences uses a strand from another as a template to synthesize DNA in an enzyme-catalyzed reaction. The final product is a novel amalgamation of the two substrates. To ensure an accurate recombination of sequences, HR is restricted to the S and G2 phases of the cell cycle. At these stages, the DNA has been replicated already and the...
Homologous Recombination02:31

Homologous Recombination

The basic reaction of homologous recombination (HR) involves two chromatids that contain DNA sequences sharing a significant stretch of identity. One of these sequences uses a strand from another as a template to synthesize DNA in an enzyme-catalyzed reaction. The final product is a novel amalgamation of the two substrates. To ensure an accurate recombination of sequences, HR is restricted to the S and G2 phases of the cell cycle. At these stages, the DNA has been replicated already and the...
Crossing Over01:30

Crossing Over

Crossing over is the exchange of genetic information between homologous chromosomes during prophase I of meiosis I. Genetic recombination gives rise to allelic diversity in the newly formed daughter cells. In humans, crossing over produces genetically distinct haploid egg and sperm cells that undergo fertilization to produce unique offspring. Before cell division starts, the germ cell’s chromosome(s) undergo duplication in the S phase of the cell cycle. As the cells enter prophase I, duplicated...
RACE - Rapid Amplification of cDNA Ends02:35

RACE - Rapid Amplification of cDNA Ends

Rapid Amplification of cDNA Ends, or RACE, is one of the most effective methods to obtain a full-length cDNA from an mRNA sequence between a known internal region to the unknown sequence at the 5’ or 3’ end. The unknown region is cloned in the cDNA by a gene-specific primer that binds the known end, and a hybrid primer that attaches a predefined anchor sequence to the unknown end of the cDNA. The sequence in between is amplified by PCR with an anchor primer and a gene-specific primer.
Since the...
Overview of Transposition and Recombination02:13

Overview of Transposition and Recombination

Transposons make up a significant part of genomes of various organisms. Therefore, it is believed that transposition played a major evolutionary role in speciation by changing genome sizes and modifying gene expression patterns. For example, in bacteria, transposition can lead to conferring antibiotic resistance. Movement of transposable elements within the genetic pool of pathogenic bacteria can aid in transfer of antibiotic-resistant genetic elements. In eukaryotes, transposons can carry out...

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MareyMap: an R-based tool with graphical interface for estimating recombination rates.

Clément Rezvoy1, Delphine Charif, Laurent Guéguen

  • 1Université de Lyon, France.

Bioinformatics (Oxford, England)
|June 26, 2007
PubMed
Summary

MareyMap is a new bioinformatics tool for estimating genome-wide recombination rates using the Marey map approach. It provides a user-friendly interface and advanced features for genetic map analysis.

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Area of Science:

  • Genomics
  • Bioinformatics

Background:

  • The Marey map approach, comparing genetic and physical maps, is crucial for estimating genome-wide recombination rates.
  • Existing bioinformatics tools lack specific support for the Marey map approach.

Purpose of the Study:

  • To develop a dedicated bioinformatics tool for the Marey map approach.
  • To provide a user-friendly and feature-rich software for genetic map analysis.

Main Methods:

  • Development of the MareyMap tool using GNU R and Tcl/Tk.
  • Implementation of a user-friendly graphical interface.
  • Inclusion of data cleaning, sophisticated interpolation methods, and query capabilities.

Main Results:

  • MareyMap offers a comprehensive solution for Marey map analysis.
  • The tool includes ready-to-use maps for multiple model organisms.
  • It supports various import-export file formats and allows for easy upgrades.

Conclusions:

  • MareyMap addresses the need for a specialized tool in genome-wide recombination rate estimation.
  • The software facilitates efficient and accurate genetic map analysis.
  • Its design allows for future expansion with new data and methods.