Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Genome-wide Association Studies-GWAS01:11

Genome-wide Association Studies-GWAS

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.
GWAS does not require the identification of the target gene involved in...
Genomics02:02

Genomics

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...
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...
Genome Size and the Evolution of New Genes03:21

Genome Size and the Evolution of New Genes

While every living organism has a genome of some kind (be it RNA, or DNA), there is considerable variation in the sizes of these blueprints. One major factor that impacts genome size is whether the organism is prokaryotic or eukaryotic. In prokaryotes, the genome contains little to no non-coding sequence, such that genes are tightly clustered in groups or operons sequentially along the chromosome. Conversely, the genes in eukaryotes are punctuated by long stretches of non-coding sequence.
Genome Size and the Evolution of New Genes03:21

Genome Size and the Evolution of New Genes

While every living organism has a genome of some kind (be it RNA, or DNA), there is considerable variation in the sizes of these blueprints. One major factor that impacts genome size is whether the organism is prokaryotic or eukaryotic. In prokaryotes, the genome contains little to no non-coding sequence, such that genes are tightly clustered in groups or operons sequentially along the chromosome. Conversely, the genes in eukaryotes are punctuated by long stretches of non-coding sequence.
Comparing Copy Number Variations and SNPs02:26

Comparing Copy Number Variations and SNPs

Sequencing of the human genome has opened up several best-kept secrets of the genome. Scientists have identified thousands of genome variations that exist within a population. These variations can be a single nucleotide or a larger chromosomal variation.
Copy number variations or CNVs are the structural variations that cover more than 1kb of DNA sequence. The single nucleotide polymorphism (SNP), on the other hand, is a single nucleotide change or a point mutation that is found in more than 1%...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Convergence and divergence of DNA methylation and gene expression patterns in neopolyploid Arabidopsis kamchatica.

Nature communications·2026
Same author

Hybrid untargeted short-read and targeted long-read RNA sequencing facilitates genotype-phenotype associations at single-cell resolution.

Genome biology·2026
Same author

Validation of a machine learning model for predicting early deterioration in the emergency department.

The American journal of emergency medicine·2026
Same author

Resolving Sialylated N-Glycans and Immune Cell Landscapes Using a Unified Same-Section IMC-MSI Workflow.

bioRxiv : the preprint server for biology·2026
Same author

The microbiome landscape of oral cancer in young patients.

JNCI cancer spectrum·2026
Same author

MIMIC: a flexible pipeline to register and summarize IMC-MSI experiments.

Communications biology·2026

Related Experiment Video

Updated: May 22, 2026

Introductory Analysis and Validation of CUT&RUN Sequencing Data
04:58

Introductory Analysis and Validation of CUT&RUN Sequencing Data

Published on: December 13, 2024

Savant Genome Browser 2: visualization and analysis for population-scale genomics.

Marc Fiume1, Eric J M Smith, Andrew Brook

  • 1Department of Computer Science, University of Toronto, Ontario, Canada M5S 2E4.

Nucleic Acids Research
|May 29, 2012
PubMed
Summary

The Savant Genome Browser, version 2, enhances high-throughput sequencing (HTS) data analysis by integrating visualization and computation. This open-source tool offers innovative features for easier exploration and analysis of genomic data.

More Related Videos

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations
08:03

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations

Published on: December 7, 2021

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes
09:10

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes

Published on: May 22, 2018

Related Experiment Videos

Last Updated: May 22, 2026

Introductory Analysis and Validation of CUT&RUN Sequencing Data
04:58

Introductory Analysis and Validation of CUT&RUN Sequencing Data

Published on: December 13, 2024

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations
08:03

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations

Published on: December 7, 2021

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes
09:10

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes

Published on: May 22, 2018

Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • High-throughput sequencing (HTS) generates vast amounts of data, necessitating efficient analysis tools.
  • Existing HTS analysis tools often focus on either automated processing or visualization, limiting combined utility.
  • Integrating computational and visualization approaches can enhance iterative analysis and parameter refinement.

Purpose of the Study:

  • To introduce the second version of the Savant Genome Browser, a tool for visual and computational analysis of HTS data.
  • To present innovative visualization modes and navigation for genomic datatypes.
  • To demonstrate the synergy between visual and automated analyses for both expert and non-expert users.

Main Methods:

  • Development of Savant Genome Browser version 2, a standalone program.
  • Implementation of novel visualization modes and navigation interfaces for genomic data.
  • Integration of visual and computational analysis functionalities.
  • Development and presentation of community-contributed plugins.

Main Results:

  • Savant Genome Browser v2 offers improved visualization and navigation for HTS data.
  • The tool effectively synergizes visual and automated analyses, enhancing user experience.
  • Community plugins showcase the platform's flexibility in integrating diverse analytical workflows.

Conclusions:

  • Savant Genome Browser v2 provides a powerful yet user-friendly platform for HTS data exploration and analysis.
  • The integration of visualization and computation in Savant facilitates iterative analysis and broader accessibility.
  • The open-source nature and community plugins foster collaborative development and extended functionality.