Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

Peptide Identification Using Tandem Mass Spectrometry

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...

You might also read

Related Articles

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

Sort by

Same author

A functional map of phosphoprotein phosphatase regulation identifies an evolutionarily conserved reductase for the catalytic metal ions.

Nature communications·2026

Same author

Systematic discovery of motif-based interactions of the auxiliary domains of USP family deubiquitinases.

Nature communications·2026

Same author

A proteome-wide dependency map of protein interaction motifs.

Nature structural & molecular biology·2026

Same author

The non-catalytic DNA polymerase ε subunit is an NPF motif recognition protein.

Nature communications·2025

Same author

Structural basis of T-loop-independent recognition and activation of CDKs by the CDK-activating kinase.

Science (New York, N.Y.)·2025

Same author

High-throughput investigation of cyclin docking interactions reveals the complexity of motif binding determinants.

Nature communications·2025

Search research articles

Related Experiment Video

Updated: Jun 15, 2025

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes

Published on: May 22, 2018

FaSTPACE: a fast and scalable tool for peptide alignment and consensus extraction.

Hazem M Kotb¹, Norman E Davey¹

¹Division of Cancer Biology, The Institute of Cancer Research, 237 Fulham Road, London SW3 6JB, UK.

NAR Genomics and Bioinformatics

|August 22, 2024

Summary

This summary is machine-generated.

FaSTPACE is a new computational tool that rapidly aligns short peptides to identify biological function. This method aids in analyzing large peptide datasets from high-throughput experiments, improving specificity determinant extraction.

More Related Videos

Semi-automated Biopanning of Bacterial Display Libraries for Peptide Affinity Reagent Discovery and Analysis of Resulting Isolates

Semi-automated Biopanning of Bacterial Display Libraries for Peptide Affinity Reagent Discovery and Analysis of Resulting Isolates

Published on: December 6, 2017

High-Resolution Complexome Profiling by Cryoslicing BN-MS Analysis

High-Resolution Complexome Profiling by Cryoslicing BN-MS Analysis

Published on: October 15, 2019

Related Experiment Videos

Last Updated: Jun 15, 2025

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes

Published on: May 22, 2018

Semi-automated Biopanning of Bacterial Display Libraries for Peptide Affinity Reagent Discovery and Analysis of Resulting Isolates

Semi-automated Biopanning of Bacterial Display Libraries for Peptide Affinity Reagent Discovery and Analysis of Resulting Isolates

Published on: December 6, 2017

High-Resolution Complexome Profiling by Cryoslicing BN-MS Analysis

High-Resolution Complexome Profiling by Cryoslicing BN-MS Analysis

Published on: October 15, 2019

Area of Science:

Computational Biology
Bioinformatics
Proteomics

Background:

High-throughput experimental techniques generate large peptide datasets.
Existing computational tools are insufficient for processing these datasets.
There is a need for efficient methods to extract biologically functional information from peptide data.

Purpose of the Study:

Introduce FaSTPACE, a novel computational tool for peptide analysis.
Enable rapid alignment of short peptides and extraction of specificity determinants.
Provide a scalable solution for large-scale peptide datasets.

Main Methods:

FaSTPACE uses iterative pairwise peptide alignment.
It generates and updates position-specific global similarity matrices.
The method converges to a final alignment and consensus motif.
Supports custom peptide weighting based on experimental confidence.

Main Results:

FaSTPACE demonstrates state-of-the-art performance and accuracy.
Benchmarking shows superior results on curated and high-throughput datasets.
The tool effectively extracts enriched specificity determinants.

Conclusions:

FaSTPACE addresses the need for efficient peptide data processing.
It is the first tool to support custom peptide weighting for confidence.
The open-source tool is available as a Python package and web server.