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

Single Nucleotide Polymorphisms-SNPs01:05

Single Nucleotide Polymorphisms-SNPs

17.6K
A single nucleotide polymorphism or SNP is a single nucleotide variation at a specific genomic position in a large population. It is the most prevalent type of sequence variation found in the human genome. Point mutations that occur in more than 1% of the population qualify as SNPs. These are present once every 1000 nucleotides on an average in the human genome. Replacement of a purine with another purine (A/G) or a pyrimidine with another pyrimidine (C/T) is known as a transition. In contrast,...
17.6K
Survival Tree01:19

Survival Tree

295
Survival trees are a non-parametric method used in survival analysis to model the relationship between a set of covariates and the time until an event of interest occurs, often referred to as the "time-to-event" or "survival time." This method is particularly useful when dealing with censored data, where the event has not occurred for some individuals by the end of the study period, or when the exact time of the event is unknown.
 Building a Survival Tree
Constructing a...
295
Methods of Classification and Identification01:28

Methods of Classification and Identification

762
Bacterial identification relies on a diverse array of techniques to classify and understand microorganisms, each tailored to uncover specific characteristics. Traditional morphological approaches, while still valuable, are limited for closely related or structurally simple organisms. Modern methods integrate biochemical, serological, genetic, and advanced molecular tools to achieve greater accuracy.Morphological and Biochemical TechniquesMorphological characteristics, such as cell shape and...
762
Viral Mutations00:36

Viral Mutations

38.9K
A mutation is a change in the sequence of bases of DNA or RNA in a genome. Some mutations occur during replication of the genome due to errors made by the polymerase enzymes that replicate DNA or RNA. Unlike DNA polymerase, RNA polymerase is prone to errors because it is not capable of “proofreading” its work. Viruses with RNA-based genomes, like HIV, therefore accrue mutations faster than viruses with DNA-based genomes. Because mutation and recombination provide the raw material...
38.9K
Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

6.7K
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...
6.7K
Genetic Variation01:25

Genetic Variation

1.1K
Genetic variation is the diversity in DNA sequences found among individuals of the same species. This diversity is crucial for a species' survival because it helps organisms adapt to environmental changes. Genetic variation begins with fertilization, where an egg and sperm cell merge. Each of these cells carries 23 chromosomes, up to 46 in the fertilized egg. Chromosomes are long DNA strands that contain genes, the basic units of heredity.
Genes exist in different versions called alleles,...
1.1K

You might also read

Related Articles

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

Sort by
Same author

TSProm: deep learning framework to predict tissue-specific regulatory logic.

NAR genomics and bioinformatics·2026
Same author

Solid Tumors Pan Cancer Transcriptome: Tissue/Cancer specific expression groups at the Isoform-Level.

bioRxiv : the preprint server for biology·2026
Same author

HIV transgenic mouse monocytes display increased <i>in vivo</i> migration across the blood-brain barrier associated with increased expression of genes associated with mononuclear leukocyte movement.

Journal of virology·2026
Same author

HViLM: A Foundation Model for Viral Genomics Enables Multi-Task Prediction of Pathogenicity, Transmissibility, and Host Tropism.

bioRxiv : the preprint server for biology·2026
Same author

IL-7/IL-15/IL-21 cytokine-fusion scaffold generates highly functional CAR T cells enriched in long-lived T memory stem cells.

Science advances·2026
Same author

HIV- and cytomegalovirus-specific human memory CD8+ T cells are activated and expanded independent of co-stimulatory signaling by T-cell receptor-specific immunotherapeutics.

Journal of immunology (Baltimore, Md. : 1950)·2026

Related Experiment Video

Updated: Dec 7, 2025

Selecting Multiple Biomarker Subsets with Similarly Effective Binary Classification Performances
07:35

Selecting Multiple Biomarker Subsets with Similarly Effective Binary Classification Performances

Published on: October 11, 2018

7.9K

Identification of Geographic Specific SARS-Cov-2 Mutations by Random Forest Classification and Variable Selection

Manoj Kandpal1, Ramana V Davuluri1,2

  • 1Division of Health and Biomedical Informatics, Department of Preventive Medicine, Northwestern University Feinberg School of Medicine, Chicago, IL, USA.

Statistics and Applications
|September 28, 2020
PubMed
Summary

This study introduces a new pipeline to identify geographic-specific mutations in RNA viruses like SARS-CoV-2. This method accurately classifies viral lineages and aids in developing targeted diagnostic strategies.

Keywords:
ClassificationCoronavirusFeature selectionRandom forestSARS-CoV-2

More Related Videos

Isolation of Fidelity Variants of RNA Viruses and Characterization of Virus Mutation Frequency
18:10

Isolation of Fidelity Variants of RNA Viruses and Characterization of Virus Mutation Frequency

Published on: June 16, 2011

30.0K
Identification and Classification of Position-specific GABAA Receptor Subunit Missense Variants for Their Role In Hippocampal Pyramidal Neurons
08:04

Identification and Classification of Position-specific GABAA Receptor Subunit Missense Variants for Their Role In Hippocampal Pyramidal Neurons

Published on: June 6, 2025

963

Related Experiment Videos

Last Updated: Dec 7, 2025

Selecting Multiple Biomarker Subsets with Similarly Effective Binary Classification Performances
07:35

Selecting Multiple Biomarker Subsets with Similarly Effective Binary Classification Performances

Published on: October 11, 2018

7.9K
Isolation of Fidelity Variants of RNA Viruses and Characterization of Virus Mutation Frequency
18:10

Isolation of Fidelity Variants of RNA Viruses and Characterization of Virus Mutation Frequency

Published on: June 16, 2011

30.0K
Identification and Classification of Position-specific GABAA Receptor Subunit Missense Variants for Their Role In Hippocampal Pyramidal Neurons
08:04

Identification and Classification of Position-specific GABAA Receptor Subunit Missense Variants for Their Role In Hippocampal Pyramidal Neurons

Published on: June 6, 2025

963

Area of Science:

  • Genomics
  • Virology
  • Computational Biology

Background:

  • RNA viruses exhibit high mutation rates, leading to diverse lineages with varying impacts on global health.
  • The emergence of distinct viral lineages necessitates methods to track geographic-specific genetic variations and their functional consequences.

Purpose of the Study:

  • To develop and validate an analysis pipeline for identifying geographic-specific mutations and classifying viral lineages.
  • To focus on missense variants that alter protein function, aiding in understanding lineage divergence.

Main Methods:

  • Application of Random Forest classification and feature selection algorithms.
  • Development of a computational pipeline for analyzing viral genomic data.
  • Utilizing publicly available SARS-CoV-2 datasets for pipeline application and validation.

Main Results:

  • Accurate identification of country or region-specific viral lineages.
  • Successful discrimination of different lineages based on specific mutations.
  • Demonstration of the pipeline's efficacy in classifying SARS-CoV-2 variants.

Conclusions:

  • The developed pipeline effectively identifies geographic-specific mutations and classifies viral lineages.
  • Findings can inform the design of country-specific diagnostic tools for RNA viruses.
  • Prioritization of functionally significant mutations for experimental validation is facilitated.