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Related Concept Videos

Mass Spectrum01:23

Mass Spectrum

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A mass spectrum is the graphical representation of the relative abundance of the charged fragments in an analyte plotted against their mass-to-charge ratio (m/z). The plot's x-axis represents the ratio of the mass of the charged fragment to the number of charges it carries. The y axis of the plot represents the relative abundance of each charged species. The relative abundance is calculated from the signal intensity of each charged species recorded at the detector. The most intense signal (the...
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Mass Spectrum: Interpretation01:24

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An unknown compound can be established by identifying the molecular ion peak in the mass spectrum. The molecular ion peak is often weak or absent due to the predominance of fragmentation in high-energy electron beams. In such cases, a soft-energy electron beam can be used to scan the spectrum to enhance the intensity of the molecular ion peak. Additionally, chemical ionization, field ionization, and desorption ionization spectra are used to obtain a relatively intense molecular ion peak.To...
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A titration curve is a plot of some solution property versus the amount of added titrant. For acid-base titrations, solution pH is a useful property to monitor because it varies predictably with the solution composition and, therefore, may be used to monitor the titration’s progress and detect its endpoint. Acid-base titration can be performed with a strong acid and a strong base, a strong acid and a weak base, or a strong base and a weak acid.
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The Electromagnetic Spectrum02:37

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The electromagnetic spectrum consists of all the types of electromagnetic radiation arranged according to their frequency and wavelength. Each of the various colors of visible light has specific frequencies and wavelengths associated with them, and you can see that visible light makes up only a small portion of the electromagnetic spectrum. Because the technologies developed to work in various parts of the electromagnetic spectrum are different, for reasons of convenience and historical...
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Peptide Identification Using Tandem Mass Spectrometry01:33

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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.
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Peptide Bonds02:43

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A peptide bond covalently attaches amino acids through a dehydration reaction. One amino acid's carboxyl group and another amino acid's amino group combine, releasing a water molecule. The resulting bond is the peptide bond. The products that such linkages form are peptides. As more amino acids join this growing chain, the resulting chain is a polypeptide. Each polypeptide has a free amino group at one end. This end has the N-terminal, or the amino-terminal, and the other end has a free...
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Related Experiment Video

Updated: Feb 12, 2026

Mass Spectrometry-Based Proteomics Analyses Using the OpenProt Database to Unveil Novel Proteins Translated from Non-Canonical Open Reading Frames
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A reference peptide database for proteome quantification based on experimental mass spectrum response curves.

Wanlin Liu1, Lai Wei1, Jianan Sun1

  • 1State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Lifeomics, National Center for Protein Sciences (The PHOENIX Center, Beijing), Beijing, China.

Bioinformatics (Oxford, England)
|April 5, 2018
PubMed
Summary
This summary is machine-generated.

This study introduces SCRIPT-MAP, a database of empirically validated peptides for accurate mass spectrometry (MS) based proteome quantification. The best-responder peptide approach ensures robust and repeatable protein measurements.

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Area of Science:

  • Proteomics
  • Mass Spectrometry
  • Bioinformatics

Background:

  • Mass spectrometry (MS) is crucial for high-throughput protein quantification.
  • Current peptide selection methods for MS lack accuracy due to limited consideration of response linearity.
  • There is a need for empirically validated peptide selection strategies.

Purpose of the Study:

  • To develop a robust method for selecting peptides for accurate mass spectrometry-based protein quantification.
  • To construct a comprehensive database of peptide response characteristics.

Main Methods:

  • Generated experimental mass spectrum response curves for over 2.6 million peptide transitions.
  • Compiled data from dilution experiments covering 11,040 gene products.
  • Developed the SCRIPT-MAP database to store and evaluate peptide quantification data.

Main Results:

  • The SCRIPT-MAP database contains quantitative data for 121,318 peptides.
  • The best-responder (BR) peptide approach, utilizing SCRIPT-MAP, demonstrates robustness, repeatability, and accuracy.
  • This approach is effective for proteome-scale protein quantification.

Conclusions:

  • The SCRIPT-MAP database provides a valuable resource for quantitative proteomics.
  • The BR peptide selection method enhances the accuracy and applicability of MS-based quantification.
  • This study offers a novel solution for selecting reliable peptides in proteomic analyses.