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

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
Ligand Binding and Linkage00:49

Ligand Binding and Linkage

4.8K
Allosteric proteins have more than one ligand binding site; the binding of a ligand to any of these sites influences the binding of ligands to the other sites. When a protein is allosteric, its binding sites are called coupled or linked.  In the case of enzymes, the site that binds to the substrate is known as the active site and the other site is known as the regulatory site. When a ligand binds to the regulatory site, this leads to conformational changes in the protein that can influence...
4.8K
Assembly of Cytoskeletal Filaments01:18

Assembly of Cytoskeletal Filaments

18.4K
Cytoskeletal filaments are polymeric forms of smaller protein subunits. However, individual cytoskeletal filaments may easily disassemble or associate with other similar filaments to form rigid structures. Microfilaments, made of actin monomers, rely on actin-binding proteins to form bundles and create networks of individual actin filaments. Microtubules rely on microtubule-associated proteins (MAPs) to form sturdy cylindrical structures. However, the proteins involved in forming complex...
18.4K
Tagging and Fusion Proteins01:24

Tagging and Fusion Proteins

6.6K
Proteins are involved in several cellular processes and biochemical reactions. Analyzing a specific protein of interest requires it to be isolated from the other proteins in the cell. This is achieved by overexpressing the specific gene in a suitable host to produce large quantities of the target protein. A tag or label is recombined with the gene to produce a fusion protein containing the target protein and the tag. The tags on these fusion proteins can then be used for easy detection and...
6.6K

You might also read

Related Articles

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

Sort by
Same author

Update of the FANTOM web resource: enhancement for studying noncoding genomes.

Nucleic acids research·2024
Same author

A citizen science initiative for open data and visualization of COVID-19 outbreak in Kerala, India.

Journal of the American Medical Informatics Association : JAMIA·2020
See all related articles

Related Experiment Video

Updated: Jun 10, 2025

Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues
07:08

Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues

Published on: July 14, 2015

7.2K

Lightweight technology stacks for assistive linked annotations.

Nishad Thalhath1

  • 1Laboratory for Large-Scale Biomedical Data Technology, RIKEN Center for Integrative Medical Sciences, Tsurumi, Yokohama, 230-0045, Kanagawa, Japan. nishad.thalhath@riken.jp.

Genomics & Informatics
|October 10, 2024
PubMed
Summary

This project explored lightweight tech stacks for biomedical annotations, demonstrating improved efficiency and cost-effectiveness. The new approach offers a secure, privacy-focused alternative to traditional server-based annotation tools.

Keywords:
Assistive linked annotationsJavaScriptLightweight stacksNERSemantic searchServerless searchVector search

More Related Videos

Visualizing Lignification Dynamics in Plants with Click Chemistry: Dual Labeling is BLISS!
10:40

Visualizing Lignification Dynamics in Plants with Click Chemistry: Dual Labeling is BLISS!

Published on: January 26, 2018

11.9K
Applications of Immobilization of Drosophila Tissues with Fibrin Clots for Live Imaging
08:52

Applications of Immobilization of Drosophila Tissues with Fibrin Clots for Live Imaging

Published on: December 22, 2020

3.1K

Related Experiment Videos

Last Updated: Jun 10, 2025

Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues
07:08

Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues

Published on: July 14, 2015

7.2K
Visualizing Lignification Dynamics in Plants with Click Chemistry: Dual Labeling is BLISS!
10:40

Visualizing Lignification Dynamics in Plants with Click Chemistry: Dual Labeling is BLISS!

Published on: January 26, 2018

11.9K
Applications of Immobilization of Drosophila Tissues with Fibrin Clots for Live Imaging
08:52

Applications of Immobilization of Drosophila Tissues with Fibrin Clots for Live Imaging

Published on: December 22, 2020

3.1K

Area of Science:

  • Biomedical Informatics
  • Computational Biology
  • Software Engineering

Background:

  • Assistive linked annotations are crucial for biomedical research.
  • Traditional annotation tools often rely on server-based architectures, posing challenges in efficiency, cost, and data privacy.

Purpose of the Study:

  • To explore lightweight technology stacks for enhancing assistive linked annotations.
  • To demonstrate the feasibility and performance of modern JavaScript frameworks, edge functions, and serverless search technologies in annotation interfaces.

Main Methods:

  • Implementation of in-browser Named Entity Recognition (NER) using JavaScript frameworks.
  • Development of serverless embedding and vector search within web interfaces.
  • Integration of efficient serverless full-text search capabilities.
  • Creation of a proof-of-concept system to evaluate the lightweight stack.

Main Results:

  • Successfully demonstrated a proof of concept for lightweight annotation technology.
  • Showcased significant improvements in efficiency and cost-effectiveness of annotation tools.
  • Validated the potential for local-first, privacy-oriented, and secure annotation solutions.

Conclusions:

  • Lightweight technology stacks offer a viable and advantageous alternative to traditional server-based annotation systems.
  • The developed approach enhances annotation interfaces, making them more responsive, scalable, and user-friendly.
  • This advancement benefits bioinformatics researchers, practitioners, and software developers by providing better annotation tools.