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

Cryo-EM structure of a single-chain β1-adrenoceptor - AmpC β-lactamase fusion protein.

Journal of structural biology·2026

Same author

Tumor mutational burden predicts neoantigen profiles and immunotherapy response in microsatellite stable tumors across different cancer types.

Frontiers in immunology·2026

Same author

Mixed-effects additive Bayesian networks for the assessment of ruptured intracranial aneurysms: Insights from multicenter data.

Computers in biology and medicine·2025

Same author

Genotyping short tandem repeats across copy number alterations, aneuploidies, and polyploid organisms.

Communications biology·2025

Same author

Introducing Bayesian Analysis for Clinicians: Sex-Associated Risk Assessment of Intracranial Aneurysms.

Acta neurochirurgica. Supplement·2025

Same author

Detection of CADM1, MAL, and PAX1 Methylation by ddPCR for Triage of HPV-Positive Cervical Lesions.

Biomedicines·2025

Search research articles

Related Experiment Video

Updated: Aug 23, 2025

Detection of Rare Mutations in CtDNA Using Next Generation Sequencing

Detection of Rare Mutations in CtDNA Using Next Generation Sequencing

Published on: August 24, 2017

TRAL 2.0: Tandem Repeat Detection With Circular Profile Hidden Markov Models and Evolutionary Aligner.

Matteo Delucchi^1,2, Paulina Näf^1,2, Spencer Bliven^1,2,3

¹Institute of Applied Simulations, School of Life Sciences und Facility Management, Zurich University of Applied Sciences, Wädenswil, Switzerland.

Frontiers in Bioinformatics

|October 28, 2022

Summary

The Tandem Repeat Annotation Library (TRAL) enhances genomic analysis by integrating repeat data from multiple tools. Version 2.0 introduces advanced methods for repeat identification and alignment, improving accuracy in tandem repeat detection.

Keywords:

bioinformatics computational biology genome annotation profile hidden markov models protein sequence analysis tandem repeats

More Related Videos

Use of Alu Element Containing Minigenes to Analyze Circular RNAs

Use of Alu Element Containing Minigenes to Analyze Circular RNAs

Published on: March 10, 2020

Indel Detection following CRISPR/Cas9 Mutagenesis using High-resolution Melt Analysis in the Mosquito Aedes aegypti

Indel Detection following CRISPR/Cas9 Mutagenesis using High-resolution Melt Analysis in the Mosquito Aedes aegypti

Published on: September 10, 2021

Related Experiment Videos

Last Updated: Aug 23, 2025

Detection of Rare Mutations in CtDNA Using Next Generation Sequencing

Detection of Rare Mutations in CtDNA Using Next Generation Sequencing

Published on: August 24, 2017

Use of Alu Element Containing Minigenes to Analyze Circular RNAs

Use of Alu Element Containing Minigenes to Analyze Circular RNAs

Published on: March 10, 2020

Indel Detection following CRISPR/Cas9 Mutagenesis using High-resolution Melt Analysis in the Mosquito Aedes aegypti

Indel Detection following CRISPR/Cas9 Mutagenesis using High-resolution Melt Analysis in the Mosquito Aedes aegypti

Published on: September 10, 2021

Area of Science:

Genomics
Bioinformatics
Computational Biology

Background:

Tandem repeats are crucial genomic elements.
Accurate identification and analysis of tandem repeats are challenging.
Existing tools for tandem repeat annotation have limitations in integration and evaluation.

Purpose of the Study:

To introduce TRAL version 2.0, an enhanced open-source Python library for tandem repeat analysis.
To provide a unified platform for integrating and harmonizing tandem repeat annotations.
To improve the accuracy and efficiency of detecting and evaluating tandem repeats in genomic sequences.

Main Methods:

Integration and harmonization of tandem repeat annotations from diverse external tools.
Development of a statistical model for evaluating and filtering detected repeats.
Implementation of new features including circular profile hidden Markov models and Poisson Indel Process-based alignment in TRAL 2.0.
Provision of an improved installation procedure and a Docker container for accessibility.

Main Results:

TRAL 2.0 offers a robust framework for comprehensive tandem repeat analysis.
The new alignment method and statistical model enhance the reliability of repeat detection.
Enhanced usability through improved installation and containerization.

Conclusions:

TRAL 2.0 represents a significant advancement in the field of tandem repeat analysis.
The library provides researchers with powerful tools for exploring repetitive elements in genomes.
TRAL facilitates more accurate and efficient genomic sequence analysis.