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 Annotation and Assembly03:36

Genome Annotation and Assembly

16.7K
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.
16.7K
Genomics02:02

Genomics

35.5K
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...
35.5K
Genetic Screens02:46

Genetic Screens

4.6K
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...
4.6K
Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

5.8K
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...
5.8K
Synthetic Biology02:55

Synthetic Biology

4.4K
Synthetic biology is an interdisciplinary science that involves using principles from disciplines such as engineering, molecular biology, cell biology, and systems biology. It involves remodeling existing organisms from nature or constructing completely new synthetic organisms for applications such as protein or enzyme production, bioremediation, value-added macromolecule production, and the addition of desirable traits to crops, to name a few.
Golden rice
Golden rice is a genetically modified...
4.4K

You might also read

Related Articles

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

Sort by
Same author

Understanding caregiver vaccine hesitancy and experiences in children with paediatric rheumatic diseases: results from the C19-GRA Global Pediatric Survey.

EULAR rheumatology open·2026
Same author

Canadian Spine Society: 25th Annual Scientific Conference, February 25 to 28, 2025, Fairmont Le Manoir Richelieu, La Malbaie, Charlevoix, Que., Canada.

Canadian journal of surgery. Journal canadien de chirurgie·2025
Same author

The Effect of a 10-Week Electromyostimulation Intervention with the StimaWELL 120MTRS System on Multifidus Morphology and Function in Chronic Low Back Pain Patients: A Randomized Controlled Trial.

Journal of functional morphology and kinesiology·2025
Same author

Generative AI as Third Agent: Large Language Models and the Transformation of the Clinician-Patient Relationship.

Journal of participatory medicine·2025
Same author

Disposable pressure transducer to identify central pressure measurements in umbilical lines for preterm and term infants in the neonatal intensive care unit.

Journal of perinatology : official journal of the California Perinatal Association·2025
Same author

A quality improvement project improving post-operative transitions of care in a level IV NICU.

Journal of perinatology : official journal of the California Perinatal Association·2025
Same journal

Interpretable machine learning for Parkinson's disease diagnosis, staging, and biological mechanism exploration: a multicenter analysis.

BioData mining·2026
Same journal

Learning a distance for the clustering of patients with amyotrophic lateral sclerosis.

BioData mining·2026
Same journal

Multi-domain feature fusion with variational mode decomposition and hybrid LightGBM-Logistic Regression for multi-class seizure classification.

BioData mining·2026
Same journal

Large-scale transcriptomic data mining using explainable XGBoost and SHAP reveals shared biomarkers and molecular mechanisms between type-2 diabetes and triple-negative breast cancer for drug repurposing.

BioData mining·2026
Same journal

AVSeg-XAI: Deep learning framework for A/V segmentation with vascular features reveals retinal oculomics as biomarker for cardiovascular disease.

BioData mining·2026
Same journal

Navigating the uncharted: AI-driven advances in protein structure, dynamics, interactions and ligand interactions for understudied families.

BioData mining·2026
See all related articles

Related Experiment Video

Updated: May 4, 2026

Early Detection of Cyanobacterial Blooms and Associated Cyanotoxins using Fast Detection Strategy
07:13

Early Detection of Cyanobacterial Blooms and Associated Cyanotoxins using Fast Detection Strategy

Published on: February 25, 2021

3.8K

Genomic analyses with biofilter 2.0: knowledge driven filtering, annotation, and model development.

Sarah A Pendergrass, Alex Frase, John Wallace

  • 1Center for Systems Genomics, Department of Biochemistry and Molecular Biology, The Pennsylvania State University, Eberly College of Science, The Huck Institutes of the Life Sciences, University Park, Pennsylvania, PA, USA. marylyn.ritchie@psu.edu.

Biodata Mining
|January 1, 2014
PubMed
Summary
This summary is machine-generated.

Biofilter 2.0 is an updated software tool that helps researchers analyze biological data by annotating, filtering, and modeling gene interactions using integrated knowledge bases. This enhances the interpretation of genetic variations and complex disease research.

More Related Videos

Metagenomic Analysis of Silage
08:43

Metagenomic Analysis of Silage

Published on: January 13, 2017

18.7K
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

3.7K

Related Experiment Videos

Last Updated: May 4, 2026

Early Detection of Cyanobacterial Blooms and Associated Cyanotoxins using Fast Detection Strategy
07:13

Early Detection of Cyanobacterial Blooms and Associated Cyanotoxins using Fast Detection Strategy

Published on: February 25, 2021

3.8K
Metagenomic Analysis of Silage
08:43

Metagenomic Analysis of Silage

Published on: January 13, 2017

18.7K
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

3.7K

Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Biological data is rapidly expanding across multiple repositories.
  • Biofilter is a multi-purpose software tool for data annotation, filtering, and gene-gene interaction modeling.
  • Biofilter 2.0 incorporates the Library of Knowledge Integration (LOKI) for enhanced database access and gene identifier handling.

Purpose of the Study:

  • To update and enhance the Biofilter software for advanced biological data analysis.
  • To provide researchers with a flexible tool for leveraging biological knowledge.
  • To support the interpretation of diverse genetic data types.

Main Methods:

  • Revised and updated the Biofilter software tool.
  • Integrated the Library of Knowledge Integration (LOKI) database.
  • Expanded compatibility to include various data types like SNPs, rare variants, and CNVs.
  • Updated the generation of importance scores for interaction models.

Main Results:

  • Biofilter 2.0 offers a unified interface to public human genetic data sources via LOKI.
  • Enables annotation of genomic data with biological knowledge for deeper interpretation.
  • Facilitates filtering of genomic data based on biological criteria (e.g., pathways).
  • Supports the generation of predictive models for gene-gene, SNP-SNP, and CNV-CNV interactions.

Conclusions:

  • Biofilter is a flexible software tool for utilizing biological knowledge.
  • It aids in filtering, annotation, and predictive model development.
  • The tool assists in elucidating the etiology of complex phenotypic outcomes.