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: Complex Analysis01:21

Mass Spectrometry: Complex Analysis

1.0K
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...
1.0K
Mass Analyzers: Overview01:13

Mass Analyzers: Overview

983
The mass analyzer is a crucial component of the mass spectrometer. In the ionization chamber, the vaporized sample is bombarded with a high-energy electron beam to generate a radical cation and further fragment into neutral molecules, radicals, and cations. A series of negatively charged accelerator plates accelerate the cations into the mass analyzer. The mass analyzer separates ions according to their mass-to-charge (m/z) ratios and then directs them to the detector. The common types of mass...
983
High-Resolution Mass Spectrometry (HRMS)01:15

High-Resolution Mass Spectrometry (HRMS)

1.8K
The resolution of a mass spectrometer depends on the efficiency of separating ions with different ion masses. The mass of an atom is approximated to the sum of the masses of protons and neutrons inside, considering the masses of protons and neutrons as equal. However, the masses of the proton (1.6726 × 10−24 g) and neutron (1.6749 × 10−24 g) are not truly equal. There is a minor error in the expression of atomic masses relative to the simplest atom of hydrogen. For...
1.8K
Mass Spectrometry: Overview01:19

Mass Spectrometry: Overview

6.6K
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...
6.6K
Peptide Identification Using Tandem Mass Spectrometry01:33

Peptide Identification Using Tandem Mass Spectrometry

7.2K
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...
7.2K
Mass Spectrometers01:16

Mass Spectrometers

6.8K
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:
6.8K

You might also read

Related Articles

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

Sort by
Same author

Laboratory Evaluation of Contact and Feeding Deterrent Effects of Selected Essential Oils Against Different Life Stages of <i>Cylas formicarius</i> (Coleoptera: Brentidae).

Insects·2026
Same author

Predictive neural networks accelerate identification of mechanistically validated small-molecule modulators of TLR7 signaling.

Biochemical pharmacology·2026
Same author

Habenula alterations in resting state functional connectivity among autistic individuals.

Biological psychiatry. Cognitive neuroscience and neuroimaging·2026
Same author

Predicting progression of Alzheimer's disease using blood-based multi-omics data.

Bioinformatics advances·2026
Same author

Biology of <i>Bedellia somnulentella</i> (Lepidoptera: Bedelliidae) Associated with Wild <i>Ipomoea</i> spp. (Convolvulaceae) as Host Plants.

Insects·2026
Same author

NIM5 series brain-penetrant NLRP3 inflammasome inhibitors suppress neuroinflammation in EAE and Alzheimer's models.

International journal of biological macromolecules·2026
Same journal

Novel multi-cluster workflow system to support real-time HPC-enabled epidemic science: Investigating the impact of vaccine acceptance on COVID-19 spread.

Journal of parallel and distributed computing·2024
Same journal

Fast GPU 3D diffeomorphic image registration.

Journal of parallel and distributed computing·2020
Same journal

Hybrid-DCA: A double asynchronous approach for stochastic dual coordinate ascent.

Journal of parallel and distributed computing·2020
Same journal

Modeling and analysis of epidemic spreading on community networks with heterogeneity.

Journal of parallel and distributed computing·2020
Same journal

Towards High Performance Data Analytic on Heterogeneous Many-core Systems: A Study on Bayesian Sequential Partitioning.

Journal of parallel and distributed computing·2019
Same journal

Parallel Algorithms for Switching Edges in Heterogeneous Graphs.

Journal of parallel and distributed computing·2017
See all related articles

Related Experiment Video

Updated: Oct 10, 2025

Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools
07:01

Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools

Published on: August 19, 2025

238

Communication Lower-Bounds for Distributed-Memory Computations for Mass Spectrometry based Omics Data.

Fahad Saeed1, Muhammad Haseeb1, S S Iyengar1

  • 1School of Computing and Information Sciences (SCIS), Florida International University (FIU), Miami FL USA 33199.

Journal of Parallel and Distributed Computing
|December 13, 2021
PubMed
Summary
This summary is machine-generated.

Existing parallel algorithms for mass spectrometry (MS) omics data analysis are communication-bound. New, provable parallel algorithms are needed to achieve communication-optimal performance for large-scale biological studies.

More Related Videos

Direct Analysis of Single Cells by Mass Spectrometry at Atmospheric Pressure
08:19

Direct Analysis of Single Cells by Mass Spectrometry at Atmospheric Pressure

Published on: September 4, 2010

16.2K
Large Scale Non-targeted Metabolomic Profiling of Serum by Ultra Performance Liquid Chromatography-Mass Spectrometry UPLC-MS
07:34

Large Scale Non-targeted Metabolomic Profiling of Serum by Ultra Performance Liquid Chromatography-Mass Spectrometry UPLC-MS

Published on: March 14, 2013

12.9K

Related Experiment Videos

Last Updated: Oct 10, 2025

Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools
07:01

Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools

Published on: August 19, 2025

238
Direct Analysis of Single Cells by Mass Spectrometry at Atmospheric Pressure
08:19

Direct Analysis of Single Cells by Mass Spectrometry at Atmospheric Pressure

Published on: September 4, 2010

16.2K
Large Scale Non-targeted Metabolomic Profiling of Serum by Ultra Performance Liquid Chromatography-Mass Spectrometry UPLC-MS
07:34

Large Scale Non-targeted Metabolomic Profiling of Serum by Ultra Performance Liquid Chromatography-Mass Spectrometry UPLC-MS

Published on: March 14, 2013

12.9K

Area of Science:

  • Computational Biology
  • Bioinformatics
  • Mass Spectrometry

Background:

  • Mass spectrometry (MS) based omics data analysis is time-consuming and resource-intensive.
  • Existing parallel algorithms for peptide deduction from MS data were developed for smaller datasets and are not communication-optimal.

Purpose of the Study:

  • To analyze the communication bounds of existing parallel algorithms for MS data analysis.
  • To demonstrate the need for communication-optimal parallel algorithms for large-scale MS-based omics studies.

Main Methods:

  • Theoretical analysis of communication bounds for parallel algorithms.
  • Meta-analysis of published parallel algorithm performance.
  • Experimental validation of communication bounds.

Main Results:

  • Existing parallel algorithms are communication-bound, achieving .
  • A communication-optimal strategy with fast-memory can achieve but is not currently implemented.
  • Sub-optimal speedups in existing algorithms are due to not meeting communication lower-bounds.

Conclusions:

  • Next-generation, provable, and superior parallel algorithms are urgently required for MS-based large systems-biology studies.
  • These advanced algorithms are crucial for meta-proteomics, proteogenomics, microbiome, and proteomics for non-model organisms.
  • The parallel computing community is encouraged to develop algorithms for MS-based omics problems.