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

Mass Spectrometry: Overview01:19

Mass Spectrometry: Overview

5.7K
Mass spectrometry is an analytical technique used to determine the molecular mass and molecular formula of a compound. The basic principle of mass spectrometry is to generate ions from the analyte molecule and measure these ion abundances against their molecular mass.  One common type of ionization, known as electrospray ionization or EI, bombards the analyte molecules in the gas phase with high-energy electron beams. The electron beams displace an electron from the molecule and leave...
5.7K
Mass Spectrometers01:16

Mass Spectrometers

5.9K
This lesson details the instrumentation of a mass spectrometer—a physical instrument to perform mass spectrometry on analyte molecules and record the characteristic mass spectra. This is achieved via three chief functions:
5.9K
Tandem Mass Spectrometry01:21

Tandem Mass Spectrometry

1.2K
Tandem mass spectrometry is a technique that uses multiple mass analyzers in series to obtain a higher selectivity and signal-to-noise ratio for the analyte. Instruments with multiple analyzers separated by an interaction cell enable secondary fragmentation and selected study of the fragment ions.
Secondary fragmentations occur in the interaction cell and can be induced by various factors. Fragmentation induced by collision with inert gases, such as N2, Ar, He, etc., is called collision-induced...
1.2K
MALDI-TOF Mass Spectrometry01:19

MALDI-TOF Mass Spectrometry

5.1K
Mass spectrometry is a powerful characterization technique that can identify and separate a wide variety of compounds ranging from chemical to biological entities, based on their mass-to-charge ratio (m/z). The instruments that allow this detection, known as mass spectrometers, have three components: an ion source, a mass analyzer, and a detector. These spectrometers differ based on the nature of their ion source and analyzers.
Matrix-assisted laser desorption ionization (MALDI) is a commonly...
5.1K
Peptide Identification Using Tandem Mass Spectrometry01:33

Peptide Identification Using Tandem Mass Spectrometry

6.7K
Tandem mass spectrometry, also known as MS/MS or MS2, is an analytical technique that employs two mass analyzers. Essentially it is a series of mass spectrometers that helps isolate a particular biomolecule and then helps study its chemical properties.
This technique helps gather information regarding the protein from which the peptide was obtained and to study the peptides’ amino acid sequence. Identifying peptides from a complex mixture is an important component of the growing field of...
6.7K
Mass Spectrometry: Complex Analysis01:21

Mass Spectrometry: Complex Analysis

884
Mass spectrometry is an important technique for the identification of pure compounds. However, it has some limitations for the analysis of complex mixtures, often due to excessive fragmentation making the spectrum too complicated to decipher. Mass spectrometry can be combined with suitable separation methods in sequence, forming hyphenated methods, which are useful in the analysis of complex mixtures.
GC–MS is a powerful hyphenated method commonly used in forensics and environmental...
884

You might also read

Related Articles

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

Sort by
Same author

Molecular Surface Chemistry Drives Anomalous Clustering of Ultrasmall Silica Nanoparticles.

The journal of physical chemistry letters·2026
Same author

Digital Revitalization of a Legacy Linear Ion Trap System.

Analytical chemistry·2026
Same author

Magnetic Fields Enrich Paramagnetic Ion Concentrations via Magnetophoresis and Magnet-Induced Convection.

The journal of physical chemistry. B·2026
Same author

Lattice-scale variations in viscosity are correlated with solution structure at mineral-water interfaces.

Journal of colloid and interface science·2026
Same author

Enhancing Sensitivity in Targeted Single-Cell Proteomics by Coupling a Dual Ion Funnel Interface with Triple Quadrupole Mass Spectrometer.

Analytical chemistry·2026
Same author

Correction to "Transmitting and Filtering Ions in the Open Air by Applying Spirally Rotating Electric Fields to a Flexible and Segmented Stacked Ring Ion Guide".

Analytical chemistry·2026

Related Experiment Video

Updated: Sep 4, 2025

Combining Chemical Cross-linking and Mass Spectrometry of Intact Protein Complexes to Study the Architecture of Multi-subunit Protein Assemblies
10:01

Combining Chemical Cross-linking and Mass Spectrometry of Intact Protein Complexes to Study the Architecture of Multi-subunit Protein Assemblies

Published on: November 28, 2017

19.8K

SimELIT: A Novel GUI-Based Comprehensive Ion Trajectory Simulation Software for Mass Spectrometry.

Cameron Giberson1, Rajesh K Singh2, Jaehun Chun3

  • 1Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, Washington 99354, United States.

Journal of the American Society for Mass Spectrometry
|July 19, 2022
PubMed
Summary

SimELIT is a new platform for simulating ion trajectories in mass spectrometry, enabling better instrument design. It uses OpenFOAM solvers and a web GUI for versatile ion dynamics modeling from source to detector.

More Related Videos

Leaf Spray Mass Spectrometry: A Rapid Ambient Ionization Technique to Directly Assess Metabolites from Plant Tissues
06:43

Leaf Spray Mass Spectrometry: A Rapid Ambient Ionization Technique to Directly Assess Metabolites from Plant Tissues

Published on: June 21, 2018

8.8K
Using a Cyclic Ion Mobility Spectrometer for Tandem Ion Mobility Experiments
08:40

Using a Cyclic Ion Mobility Spectrometer for Tandem Ion Mobility Experiments

Published on: January 20, 2022

4.4K

Related Experiment Videos

Last Updated: Sep 4, 2025

Combining Chemical Cross-linking and Mass Spectrometry of Intact Protein Complexes to Study the Architecture of Multi-subunit Protein Assemblies
10:01

Combining Chemical Cross-linking and Mass Spectrometry of Intact Protein Complexes to Study the Architecture of Multi-subunit Protein Assemblies

Published on: November 28, 2017

19.8K
Leaf Spray Mass Spectrometry: A Rapid Ambient Ionization Technique to Directly Assess Metabolites from Plant Tissues
06:43

Leaf Spray Mass Spectrometry: A Rapid Ambient Ionization Technique to Directly Assess Metabolites from Plant Tissues

Published on: June 21, 2018

8.8K
Using a Cyclic Ion Mobility Spectrometer for Tandem Ion Mobility Experiments
08:40

Using a Cyclic Ion Mobility Spectrometer for Tandem Ion Mobility Experiments

Published on: January 20, 2022

4.4K

Area of Science:

  • Computational physics and physical chemistry
  • Mass spectrometry and analytical instrumentation
  • Scientific software development

Background:

  • Simulating ion trajectories in mass spectrometry is crucial for instrument development and understanding ion dynamics.
  • Existing methods can be technically challenging, limiting comprehensive analysis from ion source to detector.

Purpose of the Study:

  • To introduce SimELIT, a novel, modular ion trajectory simulation platform.
  • To provide a user-friendly interface for complex multiphysics simulations of ion movement.
  • To enable simulations across various conditions, including vacuum and background gas environments.

Main Methods:

  • SimELIT is built on OpenFOAM, integrating Eulerian and Lagrangian solvers.
  • It features a web-based graphical user interface (GUI) for case definition and simulation execution.
  • The platform utilizes Docker and the React Framework for modularity and accessibility.

Main Results:

  • Demonstrated ion trajectory computations for multiple m/z values in vacuum and under background gas pressure.
  • Validated SimELIT results against SIMION and theoretical calculations.
  • Successfully simulated ion trajectories within a planar FAIMS device at atmospheric pressure.

Conclusions:

  • SimELIT offers a versatile and accessible platform for ion trajectory simulation in mass spectrometry.
  • The modular architecture allows for future extensions, enhancing its applicability in instrument design and research.
  • The platform provides accurate simulations across diverse experimental conditions, aiding in the understanding of ion dynamics.