Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

Organization of Genes

Organization of Genes

Genomics

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...

Organization of Genes

Organization of Genes

Evolutionary Relationships through Genome Comparisons

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 Annotation and Assembly

Genome Annotation and Assembly

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.

Synthetic Biology

Synthetic Biology

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...

You might also read

Related Articles

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

Sort by

Same author

Programmatic access to ICTV virus taxonomy through a public ontology API.

bioRxiv : the preprint server for biology·2026

Same author

Correction: Establishing standardized transthoracic echocardiography reference ranges for mouse models: insights into the impact of anesthesia, sex, and age.

Frontiers in cardiovascular medicine·2026

Same author

A general strategy for generating expert-guided, simplified views of ontologies.

Scientific data·2026

Same author

Establishing standardized transthoracic echocardiography reference ranges for mouse models: insights into the impact of anesthesia, sex, and age.

Frontiers in cardiovascular medicine·2026

Same author

Extracting Knowledge From Scientific Texts on Patient-Derived Cancer Models Using Large Language Models: Algorithm Development and Validation Study.

JMIR bioinformatics and biotechnology·2025

Same author

International Mouse Phenotyping Consortium: Investigating gene function and providing insights into human disease.

bioRxiv : the preprint server for biology·2025

Search research articles

Related Experiment Video

Updated: Jun 21, 2026

Mapping Bacterial Functional Networks and Pathways in Escherichia Coli using Synthetic Genetic Arrays

Mapping Bacterial Functional Networks and Pathways in Escherichia Coli using Synthetic Genetic Arrays

Published on: November 12, 2012

The MGED ontology: a framework for describing functional genomics experiments.

Christian J Stoeckert¹, Helen Parkinson

¹Department of Genetics and Center for Bioinformatics, University of Pennsylvania, Philadelphia, PA 19104, USA. stoeckrt@pcbi.upenn.edu

Comparative and Functional Genomics

|July 17, 2008

Summary

The Microarray Gene Expression Data (MGED) society developed a flexible ontology framework to standardize microarray experiment descriptions. This ontology captures biological sample details and experimental design, facilitating database integration and querying for functional genomics research.

More Related Videos

Navigating MARRVEL, a Web-Based Tool that Integrates Human Genomics and Model Organism Genetics Information

Navigating MARRVEL, a Web-Based Tool that Integrates Human Genomics and Model Organism Genetics Information

Published on: August 15, 2019

Development of Compendium for Esophageal Squamous Cell Carcinoma

Development of Compendium for Esophageal Squamous Cell Carcinoma

Published on: April 12, 2024

Related Experiment Videos

Last Updated: Jun 21, 2026

Mapping Bacterial Functional Networks and Pathways in Escherichia Coli using Synthetic Genetic Arrays

Mapping Bacterial Functional Networks and Pathways in Escherichia Coli using Synthetic Genetic Arrays

Published on: November 12, 2012

Navigating MARRVEL, a Web-Based Tool that Integrates Human Genomics and Model Organism Genetics Information

Navigating MARRVEL, a Web-Based Tool that Integrates Human Genomics and Model Organism Genetics Information

Published on: August 15, 2019

Development of Compendium for Esophageal Squamous Cell Carcinoma

Development of Compendium for Esophageal Squamous Cell Carcinoma

Published on: April 12, 2024

Area of Science:

Bioinformatics
Functional Genomics
Data Standardization

Background:

The Microarray Gene Expression Data (MGED) society initially focused on microarray technology.
A need for standardized experimental information capture across diverse applications was identified.

Purpose of the Study:

To develop a flexible ontology framework for describing microarray experiments.
To standardize the capture of experimental information, focusing on biological samples and manipulation.

Main Methods:

Created a framework for describing microarray experiments.
Utilized controlled terms for common concepts and 'OntologyEntry' for species-specific details.
Focused on biological sample and experimental design aspects.

Main Results:

Developed a foundational MGED ontology for microarray experiments.
The ontology includes experimental sample, design, and aspects of microarrays.
The framework allows for external resource referencing for complex data.

Conclusions:

The MGED ontology provides a structured approach to microarray data management.
It facilitates database entry and querying, enhancing functional genomics research.
The ontology is adaptable for broader applications beyond microarrays.