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Related Concept Videos

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: 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...
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...
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...
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...
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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Mass Spectrometry-Guided Genome Mining as a Tool to Uncover Novel Natural Products
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Mass Spectrometry-Guided Genome Mining as a Tool to Uncover Novel Natural Products

Published on: March 12, 2020

Gene model detection using mass spectrometry.

Bindu Nanduri1, Nan Wang, Mark L Lawrence

  • 1College of Veterinary Medicine, Mississippi State University, Starkville, Mississippi State, USA.

Methods in Molecular Biology (Clifton, N.J.)
|December 17, 2009
PubMed
Summary
This summary is machine-generated.

This study introduces a proteomics-based method to discover novel gene models missed by computational analysis. This proteogenomic approach enhances genome annotation by integrating mass spectrometry data with genome sequences.

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Area of Science:

  • Genomics
  • Proteomics
  • Bioinformatics

Background:

  • Genome sequence utility relies on comprehensive functional element description.
  • Current genome analysis is primarily gene-centric, often missing elements.
  • Identifying all functional elements is crucial for biological research.

Purpose of the Study:

  • To present a proteomics-based method for identifying novel open reading frames (ORFs) missed by computational algorithms.
  • To improve genome annotation by integrating proteomics data with genome sequences.
  • To introduce a computational pipeline for automating proteogenomic annotation.

Main Methods:

  • Utilizing mass spectrometry to identify peptides and proteins from biological samples.
  • Combining computationally predicted ORFs and genome sequences with proteomics data.
  • Developing a proteogenomic mapping pipeline to automate the annotation workflow.

Main Results:

  • Demonstrated a proteomics-based method to identify previously undiscovered gene models.
  • Provided evidence of genome sequence expression at the protein level through mass spectrometry.
  • Developed and made available a computational pipeline for proteogenomic annotation.

Conclusions:

  • Proteogenomic annotation significantly enhances the identification of functional genomic elements.
  • The described method and pipeline offer a powerful approach to improve genome annotation accuracy.
  • This strategy aids in a more complete understanding of genome function and expression.