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Related Experiment Video

Updated: Apr 12, 2026

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

PopGeV: a web-based large-scale population genome browser.

Xinyi Shi¹, Jing Peng², Xiaohan Yu³

¹The Key Lab of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China, University of Chinese Academy of Sciences, Beijing, China, School of Computer Science and Technology, Heilongjiang University, Harbin, China, College of Electronic and Information, Northeast Agricultural University, Harbin, China and School of Computer Science and Technology, Wuhan University of Technology, Wuhan, China The Key Lab of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China, University of Chinese Academy of Sciences, Beijing, China, School of Computer Science and Technology, Heilongjiang University, Harbin, China, College of Electronic and Information, Northeast Agricultural University, Harbin, China and School of Computer Science and Technology, Wuhan University of Technology, Wuhan, China The Key Lab of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China, University of Chinese Academy of Sciences, Beijing, China, School of Computer Science and Technology, Heilongjiang University, Harbin, China, College of Electronic and Information, Northeast Agricultural University, Harbin, China and School of Computer Science and Technology, Wuhan University of Technology, Wuhan, China.

Bioinformatics (Oxford, England)

|May 24, 2015

Summary

This summary is machine-generated.

PopGeV efficiently visualizes large population genomic datasets using IndexedDB for local storage, enabling smooth browsing even with heavy network traffic. This tool aids in mining genes associated with specific traits from massive sequencing data.

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Area of Science:

Genomics
Bioinformatics

Background:

High-throughput sequencing generates massive population genomic data, posing challenges for analysis and visualization.
Existing web-based genome browsers struggle with large datasets, leading to slow response times.
IndexedDB technology offers a solution by enabling local data storage for faster access.

Purpose of the Study:

To develop an efficient and user-friendly tool for browsing and analyzing large-scale population genomic data.
To address the limitations of web-based genome browsers in handling massive datasets.

Main Methods:

Developed PopGeV, a novel genome browser utilizing IndexedDB for local data storage.
Implemented a new encoding method for compressing population Single Nucleotide Polymorphism (SNP) and Insertion-Deletion (INDEL) data.
Integrated functionality for identifying similar genomic regions and calculating population diversity indexes.

Main Results:

PopGeV enables smooth browsing of population genomic data with over 500 individuals and 2 million SNPs.
The tool effectively compresses SNP and INDEL data, improving display speed.
User-defined annotations can be integrated for functional gene mining.

Conclusions:

PopGeV provides a robust solution for visualizing and analyzing large population genomic datasets.
The use of IndexedDB significantly enhances browsing performance, even under heavy network conditions.
PopGeV facilitates user-friendly mining of gene functions and population diversity.