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

Fine Adjustment of Caenorhabditis elegans Orientation on Channeled Agar Pads for Imaging Neuroregeneration05:12

Fine Adjustment of Caenorhabditis elegans Orientation on Channeled Agar Pads for Imaging Neuroregeneration

743
Here, we present a protocol for fabricating channeled agar pads using PDMS molds created from vinyl records. The channels enable users to finely orient Caenorhabditis elegans to improve imaging contrast and facilitate the comparison of structures. These capabilities are particularly useful in neuroregeneration studies.
743
Correction of Presbyopia by Monocular Bi-Aspheric Ablation Profile05:46

Correction of Presbyopia by Monocular Bi-Aspheric Ablation Profile

726
This article provides a step-by-step guide to correcting presbyopia with a monocular bi-aspheric ablation...
726
An Introduction to Processing, Fitting, and Interpreting Transient Absorption Data08:12

An Introduction to Processing, Fitting, and Interpreting Transient Absorption Data

14.7K
This protocol is a beginner's entryway into processing, fitting, and interpreting transient absorption spectra. The focus of this protocol is the preparation of datasets, and fitting using both single wavelength kinetics and global lifetime analysis. Challenges associated with transient absorption data and its fitting are discussed.
14.7K
High-Accuracy Correction of 3D Chromatic Shifts in the Age of Super-Resolution Biological Imaging Using Chromagnon08:18

High-Accuracy Correction of 3D Chromatic Shifts in the Age of Super-Resolution Biological Imaging Using Chromagnon

7.9K
Correction of chromatic shifts in three-dimensional (3D) multicolor fluorescence microscopy images is crucial for quantitative data analyses. This protocol is developed to measure and correct chromatic shifts in biological samples through acquisition of suitable reference images and processing with the open-source software,...
7.9K
Operation of the Collaborative Composite Manufacturing (CCM) System10:09

Operation of the Collaborative Composite Manufacturing (CCM) System

7.0K
A collaborative composite manufacturing system is developed for robotic lay-up of composite laminates using the prepreg tape. The proposed system allows the production of composite laminates with high levels of geometrical complexity. The issues in the path planning, coordination of the robots and control are addressed in the proposed...
7.0K
Proofreading and DNA Repair Assay Using Single Nucleotide Extension and MALDI-TOF Mass Spectrometry Analysis11:08

Proofreading and DNA Repair Assay Using Single Nucleotide Extension and MALDI-TOF Mass Spectrometry Analysis

10.1K
A non-labeled, non-radio-isotopic method for DNA polymerase proofreading and a DNA repair assay was developed by using high-resolution MALDI-TOF mass spectrometry and a single nucleotide extension strategy. The assay proved to be very specific, simple, rapid, and easy to perform for proofreading and repair patches shorter than 9-nucleotides.
10.1K

You might also read

Related Articles

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

Sort by
Same author

Flow-Xl: a new facility for the analysis of crystallization in flow systems.

Journal of applied crystallography·2024
Same author

A systematic analysis of read-across within REACH registration dossiers.

Computational toxicology (Amsterdam, Netherlands)·2024
Same author

Impact of maternal body mass index (BMI) and the challenges of fetal echocardiography.

Public health·2024
Same author

SMaRT-PCR: sampling using masks and RT-PCR, a non-invasive diagnostic tool for paediatric pulmonary TB.

The international journal of tuberculosis and lung disease : the official journal of the International Union against Tuberculosis and Lung Disease·2024
Same author

Pulmonary hypertension in adults completing tuberculosis treatment.

African journal of thoracic and critical care medicine·2023
Same author

Evaluating structure-based activity in a high-throughput assay for steroid biosynthesis.

Computational toxicology (Amsterdam, Netherlands)·2023

Related Experiment Video

Updated: Jan 2, 2026

Author Spotlight: Advancements in Refractive Surgical Correction for Presbyopia and Exploring Postoperative Visual Acuity
05:46

Author Spotlight: Advancements in Refractive Surgical Correction for Presbyopia and Exploring Postoperative Visual Acuity

Published on: September 20, 2024

726

Visualization based on the Enzyme Commission nomenclature

I Shah1, L Hunter

  • 1George Mason University, Fairfax, VA 22030, USA. ishah@gmu.edu

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
|August 11, 1998
PubMed
Summary
This summary is machine-generated.

We created an interactive graph tool to visualize protein function data based on the International Enzyme Commission (IEC) nomenclature. This tool aids in exploring quantitative data across enzyme classes and predicting function from sequence similarity.

More Related Videos

Operation of the Collaborative Composite Manufacturing CCM System
10:09

Operation of the Collaborative Composite Manufacturing CCM System

Published on: October 1, 2019

7.0K
Proofreading and DNA Repair Assay Using Single Nucleotide Extension and MALDI-TOF Mass Spectrometry Analysis
11:08

Proofreading and DNA Repair Assay Using Single Nucleotide Extension and MALDI-TOF Mass Spectrometry Analysis

Published on: June 19, 2018

10.1K

Related Experiment Videos

Last Updated: Jan 2, 2026

Author Spotlight: Advancements in Refractive Surgical Correction for Presbyopia and Exploring Postoperative Visual Acuity
05:46

Author Spotlight: Advancements in Refractive Surgical Correction for Presbyopia and Exploring Postoperative Visual Acuity

Published on: September 20, 2024

726
Operation of the Collaborative Composite Manufacturing CCM System
10:09

Operation of the Collaborative Composite Manufacturing CCM System

Published on: October 1, 2019

7.0K
Proofreading and DNA Repair Assay Using Single Nucleotide Extension and MALDI-TOF Mass Spectrometry Analysis
11:08

Proofreading and DNA Repair Assay Using Single Nucleotide Extension and MALDI-TOF Mass Spectrometry Analysis

Published on: June 19, 2018

10.1K

Area of Science:

  • Biochemistry
  • Bioinformatics
  • Computational Biology

Background:

  • The International Enzyme Commission (IEC) provides a standardized nomenclature for enzyme function.
  • Visualizing complex protein function data is crucial for biological research.
  • Current methods may not effectively integrate diverse data types with functional classifications.

Purpose of the Study:

  • To develop an interactive graph-based visualization tool for protein function data.
  • To represent the International Enzyme Commission (IEC) nomenclature and associated data.
  • To facilitate the exploration of quantitative attributes across protein function classes.

Main Methods:

  • Developed a visualization tool representing 1327 reaction types and abstract classifications from the IEC nomenclature as an interactive graph.
  • Nodes and links in the graph support various data types and visualization methods (color, size, charts, text).
  • Enabled interactive visualization of single nodes, groups, or the entire graph.

Main Results:

  • Demonstrated the tool's utility by visualizing data on sequence similarity for predicting enzyme commission (EC) class.
  • The tool allowed rapid scanning of hundreds of functional classes.
  • Enabled correlation of sequence predictability with other attributes to hypothesize causes of prediction failure.

Conclusions:

  • The developed visualization tool effectively aids in exploring protein function data and quantitative attributes.
  • It facilitates hypothesis generation regarding predictive failures in enzyme function classification.
  • This approach enhances the understanding of enzyme function and sequence-based predictions.