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Related Experiment Video

Updated: Apr 21, 2026

Mapping Genome-wide Accessible Chromatin in Primary Human T Lymphocytes by ATAC-Seq

Mapping Genome-wide Accessible Chromatin in Primary Human T Lymphocytes by ATAC-Seq

Published on: November 13, 2017

Mapping contigs using CONTIGuator.

Marco Galardini¹, Alessio Mengoni, Marco Bazzicalupo

¹Department of Biology, University of Florence, Florence, Italy, marco@ebi.ac.uk.

Methods in Molecular Biology (Clifton, N.J.)

|October 26, 2014

Summary

This summary is machine-generated.

The CONTIGUATOR algorithm aids in bacterial genome assembly by aligning draft genome contigs to reference genomes. This facilitates genome finishing and enables structural genomics analysis, even for complex multipartite genomes.

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Area of Science:

Genomics
Bioinformatics

Background:

Bacterial genomic sequencing is routine, with comparative genomics enabling multi-strain analysis.
Draft genome sequences, often fragmented into contigs, hinder complete genomic analyses like annotation and structural studies.

Purpose of the Study:

To present the CONTIGUATOR algorithm for improving draft genome assembly and analysis.
To demonstrate CONTIGUATOR's utility in scaffold generation, primer design, and structural genomics.

Main Methods:

Utilizes comparative genomics to align draft genome contigs to a closely related closed genome.
Employs an algorithm to resolve contig orientation and generate scaffolds.
Handles multipartite genomes (chromosomes and plasmids) and maps contigs to specific replicons.

Main Results:

Produces high-quality scaffolds and PCR primer pairs for genome finishing.
Enables structural genomics analysis through contig mapping.
Effectively resolves contig orientation and handles complex genome structures.

Conclusions:

CONTIGUATOR significantly facilitates the finishing of draft bacterial genomes.
The algorithm supports comprehensive genomic analysis, including structural studies, for both simple and multipartite genomes.