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

Genomics02:02

Genomics

35.8K
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...
35.8K
Genome-wide Association Studies-GWAS01:11

Genome-wide Association Studies-GWAS

12.4K
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...
12.4K
Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

5.7K
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...
5.7K
Comparing Copy Number Variations and SNPs02:26

Comparing Copy Number Variations and SNPs

17.2K
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%...
17.2K
Genetic Screens02:46

Genetic Screens

4.9K
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.
Forward genetic screens
Forward or “classical” genetic screens involve creating random mutations in an organism’s DNA using radiation, mutagens, or insertion of additional bases, which...
4.9K
Genome Annotation and Assembly03:36

Genome Annotation and Assembly

18.8K
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.
18.8K

You might also read

Related Articles

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

Sort by
Same author

Swarm Intelligence in Drug Discovery Applications: Unlocking Deeper Insights on the Identification and Optimization of Potential Drug Candidates.

Drug design, development and therapy·2026
Same author

Eszopiclone for the treatment of primary insomnia: a systematic review and meta-analysis of double-blind, randomized, placebo-controlled trials.

Sleep medicine·2019
Same author

Estrogen receptors promote NSCLC progression by modulating the membrane receptor signaling network: a systems biology perspective.

Journal of translational medicine·2019
Same author

Combination Therapy of Acitretin Capsule and Chinese Herbs for Patients with Lichen Planus Pigmentosus-Inversus.

Chinese journal of integrative medicine·2019
Same author

Bisdemethoxycurcumin Protection of Cardiomyocyte Mainly Depends on Nrf2/HO-1 Activation Mediated by the PI3K/AKT Pathway.

Chemical research in toxicology·2019
Same author

Endogenous HCN Channels Modulate the Firing Activity of Globus Pallidus Neurons in Parkinsonian Animals.

Frontiers in aging neuroscience·2019

Related Experiment Video

Updated: Jun 5, 2025

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

9.1K

Tokenvizz: GraphRAG-Inspired Tokenization Tool for Genomic Data Discovery and Visualization.

Çerağ Oğuztüzün1, Zhenxiang Gao1, Rong Xu1

  • 1Case Western Reserve University, Cleveland, Ohio, USA.

Biorxiv : the Preprint Server for Biology
|December 16, 2024
PubMed
Summary
This summary is machine-generated.

Tokenvizz visualizes genomic data using graph-based modeling, enhancing the discovery of complex DNA relationships and functional interactions for biomedical research.

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

2.1K
Author Spotlight: Investigating the Role of Repetitive DNA Misregulation in Cancer Initiation and Immunotherapy Resistance
04:58

Author Spotlight: Investigating the Role of Repetitive DNA Misregulation in Cancer Initiation and Immunotherapy Resistance

Published on: December 13, 2024

2.1K

Related Experiment Videos

Last Updated: Jun 5, 2025

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

9.1K
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

2.1K
Author Spotlight: Investigating the Role of Repetitive DNA Misregulation in Cancer Initiation and Immunotherapy Resistance
04:58

Author Spotlight: Investigating the Role of Repetitive DNA Misregulation in Cancer Initiation and Immunotherapy Resistance

Published on: December 13, 2024

2.1K

Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Interpreting complex genomic relationships and predicting functional interactions is a major challenge in biomedical research.
  • Existing methods often struggle with the non-linear nature of genomic data.

Purpose of the Study:

  • To introduce Tokenvizz, a novel tool for genomic analysis that improves data discovery and visualization.
  • To demonstrate the utility of graph-based modeling for understanding genomic sequences.

Main Methods:

  • Tokenvizz represents genomic sequences as graphs, using k-mers as nodes and attention scores as edge weights.
  • It employs a GraphRAG-inspired tokenization approach.
  • A web-based interface allows interactive exploration of genomic relationships.

Main Results:

  • Tokenvizz enables visual interpretation of complex, non-linear relationships within DNA sequences.
  • The tool facilitates the extraction of biologically meaningful insights into regulatory patterns and functional elements.
  • Applied to promoter-enhancer interaction prediction, Tokenvizz outperformed traditional sequential models.

Conclusions:

  • Graph-based representations offer advantages for biological discovery in genomics.
  • Tokenvizz provides an interpretable and effective method for exploring genomic data.
  • The tool has significant potential for advancing biomedical research by enhancing genomic analysis and prediction.