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Related Concept Videos

Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

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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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Genomics02:02

Genomics

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Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
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Genome-wide Association Studies-GWAS01:11

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Genome-wide association studies or GWAS are used to identify whether common SNPs are associated with certain diseases. Suppose specific SNPs are more frequently observed in individuals with a particular disease than those without the disease. In that case, those SNPs are said to be associated with the disease. Chi-square analysis is performed to check the probability of the allele likely to be associated with the disease.
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Next-generation sequencing technologies have created large genomic databases of a variety of animals and plants. Ever since the human genome project was completed, scientists studied the genome of primates, mammals, and other phylogenetically distant living beings. Such large-scale  studies have provided new insights into the evolutionary relationship between organisms.
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Genetic screens are tools used to identify genes and mutations responsible for phenotypes of interest. Genetic screens help identify individuals or a group of people at risk of developing  genetic diseases and help them with early intervention, targeted therapy, and reproductive options.
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Molecular taxonomy has revolutionized the understanding and classification of bacteria, providing precise insights into their diversity, evolutionary relationships, and ecological roles. By utilizing molecular techniques such as DNA sequencing and fingerprinting, researchers have made significant strides in various fields related to bacterial studies.Resolving Taxonomic AmbiguitiesMolecular taxonomy has been instrumental in distinguishing closely related bacterial species initially thought to...
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Related Experiment Video

Updated: Oct 6, 2025

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations
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Visualization Tools for Genomic Conservation.

Venkat Bandi1, Carl Gutwin2, Jorge Núñez Siri1

  • 1Department of Computer Science, University of Saskatchewan, Saskatoon, SK, Canada.

Methods in Molecular Biology (Clifton, N.J.)
|January 17, 2022
PubMed
Summary

SynVisio and Accusyn offer web-based tools for visualizing genomic conservation, enabling real-time synteny exploration and analysis. These tools support large-scale genomic data interaction and visualization for researchers.

Keywords:
Comparative genomicsGenome visualizationSynteny analysis

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Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Genomic conservation analysis is crucial for understanding genome evolution and function.
  • Existing tools for synteny exploration can be difficult to use and lack interactive features.

Purpose of the Study:

  • To introduce SynVisio and Accusyn, freely available web-based tools for visualizing genomic conservation.
  • To provide researchers with interactive platforms for synteny exploration and analysis.

Main Methods:

  • The tools utilize standard file formats compatible with existing synteny detection systems (e.g., MCScanX, DAGChainer).
  • They offer multiple coordinated visual representations, adjustable visualization scales, and annotation track loading (BedGraph).
  • Features include techniques for reducing visual clutter, downloading high-quality images, and a snapshot panel for saving interface configurations.

Main Results:

  • SynVisio and Accusyn provide accessible, interactive visualizations for genomic datasets.
  • The tools facilitate large-scale genomic analysis through features like multi-level plots and various visualization scales.
  • Users can explore synteny across multiple genomic regions and save analysis states.

Conclusions:

  • SynVisio and Accusyn enhance genomic conservation visualization and synteny analysis.
  • These tools offer valuable, user-friendly features for researchers working with large genomic datasets.
  • The web-based nature ensures easy accessibility for the scientific community.