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Tandem repeats over the edit distance.

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Detection of Rare Mutations in CtDNA Using Next Generation Sequencing

Detection of Rare Mutations in CtDNA Using Next Generation Sequencing

Published on: August 24, 2017

TRedD--a database for tandem repeats over the edit distance.

Dina Sokol¹, Firat Atagun

¹Department of Computer and Information Science, Brooklyn College of the City University of New York, 2900 Bedford Avenue, Brooklyn, NY 11210, USA. sokol@sci.brooklyn.cuny.edu

Database : the Journal of Biological Databases and Curation

|July 14, 2010

Summary

This study introduces TRedD, a new database for human genome tandem repeats, and TandemGraph, a visualization tool. These resources offer an innovative definition and facilitate the analysis of DNA sequence repeats.

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Area of Science:

Genomics
Bioinformatics

Background:

Tandem repeats are DNA sequences with multiple contiguous copies of a pattern.
These repeats are prevalent in eukaryotic and prokaryotic genomes.
They serve as crucial markers in human identity testing, disease diagnosis, and population studies.

Purpose of the Study:

To introduce TRedD, a novel database of human genome tandem repeats.
To present TandemGraph, a tool for visualizing DNA repeats.
To provide freely accessible resources for repeat analysis.

Main Methods:

Development of the TRedD database incorporating an 'evolutive tandem repeats' definition.
Creation of the TandemGraph software for graphical depiction of repeats.
Public release of the database and associated software.

Main Results:

TRedD offers a comprehensive collection of human tandem repeats.
TandemGraph provides an intuitive method for visualizing repeat data.
Both resources are publicly available online.

Conclusions:

TRedD and TandemGraph represent significant advancements in the study of tandem repeats.
These tools will aid researchers in identity testing, disease diagnosis, and population genetics.
The innovative definition and visualization enhance the analysis of genomic repeats.