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Related Concept Videos

Genome Annotation and Assembly03:36

Genome Annotation and Assembly

The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
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Related Experiment Video

Updated: Jun 18, 2026

Design and Synthesis of a Reconfigurable DNA Accordion Rack
07:44

Design and Synthesis of a Reconfigurable DNA Accordion Rack

Published on: August 15, 2018

ABACAS: algorithm-based automatic contiguation of assembled sequences.

Samuel Assefa1, Thomas M Keane, Thomas D Otto

  • 1Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Cambridge CB10 1SA, UK. sa4@sanger.ac.uk

Bioinformatics (Oxford, England)
|June 6, 2009
PubMed
Summary
This summary is machine-generated.

ABACAS is a new tool that rapidly contiguates draft genome assemblies using a reference sequence. It aids in ordering, orientating, and closing gaps for high-quality genome sequencing.

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Last Updated: Jun 18, 2026

Design and Synthesis of a Reconfigurable DNA Accordion Rack
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Published on: August 15, 2018

Patterning of Microorganisms and Microparticles through Sequential Capillarity-assisted Assembly
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Simulation of a Scaled Assembly Process with Collaboration of a Robotic Arm and Monitoring through a Vision System for Quality Control

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Area of Science:

  • Genomics
  • Bioinformatics

Background:

  • Advancements in sequencing technologies drive interest in sequencing closely related strains.
  • High-quality draft genomes are now producible using de novo and mapping-based assemblers.

Purpose of the Study:

  • To introduce ABACAS, a novel tool for contiguating draft genome assemblies.
  • To facilitate the transition from draft contigs to fully contiguated genome sequences.

Main Methods:

  • ABACAS aligns, orders, and orients contigs based on a reference genome.
  • It visualizes contigs using the ACT comparative browser.
  • Automated primer design is incorporated for gap closure.

Main Results:

  • ABACAS enables rapid contiguation of shotgun-assembled contigs.
  • The tool supports visualization and primer design for gap closure.

Conclusions:

  • ABACAS addresses the need for tools to complete draft genome assemblies.
  • It streamlines the process of achieving fully contiguated genome sequences from draft data.