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Related Concept Videos

Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
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Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...

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Updated: Jun 26, 2026

RNA Next-Generation Sequencing and a Bioinformatics Pipeline to Identify Expressed LINE-1s at the Locus-Specific Level
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Published on: May 19, 2019

A-liner: linear alignment visualizer for genome comparisons.

Miki Okuno1, Takeshi Yamamoto1, Yoshitoshi Ogura1

  • 1Division of Microbiology, Department of Infectious Medicine, Kurume University School of Medicine, Kurume, Fukuoka 830-0011, Japan.

Bioinformatics (Oxford, England)
|June 25, 2026
PubMed
Summary
This summary is machine-generated.

A-liner is a command-line tool that generates linear visualizations for genome-scale sequence alignments. This flexible tool supports multiple aligner outputs and integrates annotations for publication-ready comparative genomics.

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Last Updated: Jun 26, 2026

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Genome visualization is crucial for comparative genomics.
  • Existing tools may lack flexibility in handling diverse aligner outputs and integrated data types.

Purpose of the Study:

  • To introduce A-liner, a novel command-line tool for linear genome-scale sequence alignment visualization.
  • To provide a flexible and integrated solution for comparative genome visualization across various organisms.

Main Methods:

  • A-liner is a command-line tool developed for generating linear visualizations.
  • It supports input from multiple sequence alignment tools.
  • The tool integrates visualization of annotations, highlights, quantitative tracks, and coordinate scales.

Main Results:

  • A-liner generates publication-ready comparative genome visualizations.
  • The tool is applicable to a wide range of organisms, from bacteria to large eukaryotic genomes.
  • It facilitates efficient visualization of complex genomic data.

Conclusions:

  • A-liner is a versatile command-line tool for linear visualization of genome-scale sequence alignments.
  • It effectively integrates diverse data types and supports multiple aligner outputs.
  • The tool enhances the generation of publication-ready comparative genome visualizations for various organisms.