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

16.5K
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.
16.5K
Multi-species Conserved Sequences02:51

Multi-species Conserved Sequences

3.3K
Next-generation sequencing technologies have created large genomic databases of a variety of animals and plants. Ever since the human genome project was completed, scientists studied the genome of primates, mammals, and other phylogenetically distant living beings. Such large-scale  studies have provided new insights into the evolutionary relationship between organisms.
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved...
3.3K
Next-generation Sequencing03:00

Next-generation Sequencing

87.6K
The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features....
87.6K
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
Sanger Sequencing01:57

Sanger Sequencing

800.4K
DNA sequencing is a fundamental technique that is routinely used in the biological sciences. This method can be applied to a range of questions at different scales - from the sequencing of a cloned DNA fragment or the study of a mutation in a gene up to whole-genome sequencing. However, despite the widespread use of sequencing today, it was not until 1977 that Fredrick Sanger and his collaborators developed the chain-termination method to decode DNA sequences. It relies on the separation of a...
800.4K
Maxam-Gilbert Sequencing01:05

Maxam-Gilbert Sequencing

10.5K
In the same year as the discovery of the Sanger sequencing method, another group of scientists, Allan Maxam and Walter Gilbert, demonstrated their chemical-cleavage method for DNA sequencing. The Maxam-Gilbert method relies on using different chemicals that can cleave the DNA sequence at specific sites, the separation of resulting DNA fragments of variable size using electrophoresis, and deciphering the DNA sequence from the resulting gel bands.
Challenges of the Maxam-Gilbert Method
The...
10.5K

You might also read

Related Articles

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

Sort by
Same authorSame journal

FAIR in practice: minimum metadata schema for bioinformatics analytics by machines.

Journal of biomedical semantics·2026
Same author

[Training conditions in postgraduate family medicine training in Bavaria and the role of the Competence Center: A comparative cross-sectional study].

Zeitschrift fur Evidenz, Fortbildung und Qualitat im Gesundheitswesen·2026
Same author

Work-life integration in interprofessional general practice collaboration: a qualitative exploration of different trends among Bavarian general practitioners.

BMJ open·2026
Same author

The medical competency training "climate-sensitive health counseling" - an interdisciplinary approach in planetary health education.

GMS journal for medical education·2026
Same author

[Gender differences in the willingness to transition to interprofessional general practice teams].

Gesundheitswesen (Bundesverband der Arzte des Offentlichen Gesundheitsdienstes (Germany))·2026
Same author

Core values and best practice criteria for interprofessional teams in primary care: a qualitative interview study with general practitioners and other health professionals from Bavaria, Germany.

BMC primary care·2025
Same journal

OnTEPT: a multimodal OWL ontology for post-traumatic stress disorder.

Journal of biomedical semantics·2026
Same journal

Immune biomarkers, profiles, and responses: a vaccine ontology perspective.

Journal of biomedical semantics·2026
Same journal

A pragmatist approach to bridging tables and ontologies through LinkML and punning.

Journal of biomedical semantics·2026
Same journal

Prenatal monitoring in primary health care: a design science research-based approach to FHIR interoperability.

Journal of biomedical semantics·2026
Same journal

From narrative evidence to computable knowledge: a decision-relevant corpus for medicinal herb-disease relationships.

Journal of biomedical semantics·2026
See all related articles

Related Experiment Video

Updated: Apr 26, 2026

Novel Sequence Discovery by Subtractive Genomics
09:40

Novel Sequence Discovery by Subtractive Genomics

Published on: January 25, 2019

7.7K

Preserving sequence annotations across reference sequences.

Zuotian Tatum1, Marco Roos2, Andrew P Gibson3

  • 1Department of Human Genetics, Center for Human and Clinical Genetics, Leiden University Medical Center, Einthovenweg 20, 2333 ZC Leiden, the Netherlands ; Department of Rheumatology, Leiden University Medical Center, Albinusdreef 2, 2333 ZA Leiden, the Netherlands.

Journal of Biomedical Semantics
|August 6, 2014
PubMed
Summary
This summary is machine-generated.

This study introduces a new RDF data model for sequence annotations, improving data integration across different reference sequences. This semantic enrichment enhances interoperability and reduces errors in genomics research.

More Related Videos

Creating and Applying a Reference to Facilitate the Discussion and Classification of Proteins in a Diverse Group
07:49

Creating and Applying a Reference to Facilitate the Discussion and Classification of Proteins in a Diverse Group

Published on: August 16, 2017

6.8K
An Integrated Approach for Microprotein Identification and Sequence Analysis
09:37

An Integrated Approach for Microprotein Identification and Sequence Analysis

Published on: July 12, 2022

3.1K

Related Experiment Videos

Last Updated: Apr 26, 2026

Novel Sequence Discovery by Subtractive Genomics
09:40

Novel Sequence Discovery by Subtractive Genomics

Published on: January 25, 2019

7.7K
Creating and Applying a Reference to Facilitate the Discussion and Classification of Proteins in a Diverse Group
07:49

Creating and Applying a Reference to Facilitate the Discussion and Classification of Proteins in a Diverse Group

Published on: August 16, 2017

6.8K
An Integrated Approach for Microprotein Identification and Sequence Analysis
09:37

An Integrated Approach for Microprotein Identification and Sequence Analysis

Published on: July 12, 2022

3.1K

Area of Science:

  • Genomics
  • Bioinformatics
  • Data Science

Background:

  • Current sequence annotation formats lack specificity regarding reference sequence versions, hindering data integration.
  • Integrating annotations from diverse sources is challenging and prone to errors due to inconsistent metadata.

Purpose of the Study:

  • To develop a standardized RDF data model for sequence annotations.
  • To enhance interoperability and reduce errors in genomics data integration.
  • To address gaps in existing ontologies for versioned reference sequences.

Main Methods:

  • Utilized the ontological framework of OBO Foundry and Basic Formal Ontology (BFO).
  • Defined reference sequences as the core integration domain.
  • Established three semantic relationships for sequence annotations.
  • Created the Reference Sequence Annotation model.

Main Results:

  • Presented a novel RDF data model for sequence annotation.
  • Demonstrated a working example of a linked sequence annotation instance.
  • Showcased integration capabilities across different reference assemblies.
  • Identified semantic relationships crucial for annotation interoperability.

Conclusions:

  • The developed format enables semantically rich and easily integrable sequence annotations.
  • The model facilitates linking annotations across diverse reference sequences and assemblies.
  • Further challenges in modeling reference sequences with BFO were identified.