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Related Concept Videos

MALDI-TOF Mass Spectrometry01:19

MALDI-TOF Mass Spectrometry

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...
Tandem Mass Spectrometry01:21

Tandem Mass Spectrometry

Tandem mass spectrometry is a technique that uses multiple mass analyzers in series to obtain a higher selectivity and reduce chemical noise during analyte detection. 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...
Peptide Identification Using Tandem Mass Spectrometry01:33

Peptide Identification Using Tandem Mass Spectrometry

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...
Mass Spectrometry: Overview01:19

Mass Spectrometry: Overview

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 electron 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 behind a...
Mass Spectrometry: Complex Analysis01:21

Mass Spectrometry: Complex Analysis

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...
Mass Spectrometers01:16

Mass Spectrometers

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:

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

Published on: August 19, 2025

Elastic net-based framework for imaging mass spectrometry data biomarker selection and classification.

Fengqing Zoe Zhang1, Don Hong

  • 1Department of Mathematical Sciences, Middle Tennessee State University, Murfreesboro, TN 37132, U.S.A.

Statistics in Medicine
|March 12, 2011
PubMed
Summary
This summary is machine-generated.

This study introduces EN4IMS, a new tool for imaging mass spectrometry (IMS) data analysis. It enhances biomarker discovery and classification by integrating spatial information into the elastic net model for more accurate results.

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Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools
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Low Molecular Weight Protein Enrichment on Mesoporous Silica Thin Films for Biomarker Discovery
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Low Molecular Weight Protein Enrichment on Mesoporous Silica Thin Films for Biomarker Discovery

Published on: April 17, 2012

Area of Science:

  • Proteomics
  • Biomarker Discovery
  • Computational Biology

Background:

  • Imaging mass spectrometry (IMS) offers rapid protein localization and expression analysis.
  • IMS data presents challenges in high dimensionality and integrating spectral-spatial information.
  • Efficiently analyzing IMS data for trace features based on spectral and spatial patterns is crucial.

Purpose of the Study:

  • To develop a novel tool for biomarker selection and classification in IMS data.
  • To address the challenges of high dimensionality and spectral-spatial information integration in IMS data processing.
  • To present a comprehensive software package, EN4IMS, for enhanced IMS data analysis.

Main Methods:

  • Incorporation of a spatial penalty term into the elastic net (EN) model.
  • Development of a new algorithm, EN4IMS, for biomarker selection and classification.
  • Application of the method to both simulated and real IMS data.

Main Results:

  • EN4IMS efficiently and effectively processes IMS data.
  • The algorithm produces a more precise list of selected peaks for biomarker discovery.
  • EN4IMS provides more accurate classification results compared to existing methods.

Conclusions:

  • EN4IMS is an effective tool for imaging mass spectrometry data processing.
  • The developed method aids in the confirmation of potential new biomarkers.
  • EN4IMS improves the accuracy of classification in IMS-based studies.