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Mining Spatial Transcriptomics Datasets using DeepSpaceDB

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MSDB: a comprehensive, annotated database of microsatellites.

Akshay Kumar Avvaru^1,2, Deepak Sharma¹, Archana Verma¹

¹CSIR-Centre for Cellular and Molecular Biology, Hyderabad - 500007, India.

Nucleic Acids Research

|October 11, 2019

Summary

This summary is machine-generated.

The MicroSatellite DataBase (MSDB) offers >4 billion microsatellites from 37,680 genomes, providing a comprehensive resource for studying their evolution and regulatory roles. This user-friendly portal facilitates interactive analysis and visualization of microsatellite data across species.

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Area of Science:

Genomics
Bioinformatics
Molecular Biology

Background:

Microsatellites, short tandem repeats, are crucial genome markers with emerging roles in gene regulation and disease.
Their evolutionary patterns and functional significance in eukaryotes are not fully understood.
Existing microsatellite databases lack comprehensiveness and user-friendly analytical features.

Purpose of the Study:

To develop and present the MicroSatellite DataBase (MSDB), the most extensive collection of microsatellite data available.
To provide a user-friendly platform for interactive analysis and visualization of microsatellite data across multiple species.
To facilitate research into microsatellite evolution, genome organization, and gene regulation.

Main Methods:

Compiled >4 billion microsatellites from 37,680 eukaryotic genomes.
Developed a web portal for data access, analysis, and visualization.
Implemented features for interactive data exploration, filtering, and comparison across species.

Main Results:

MSDB is the largest and most comprehensive microsatellite database to date.
The database offers user-friendly tools for interactive data analysis and visualization.
Data can be explored via filterable tables and comparative charts, supporting multi-species analysis.

Conclusions:

MSDB serves as a powerful, updated resource for researchers studying microsatellites.
Its comprehensive data and interactive features aid in understanding microsatellite evolution and function.
The database supports research on genome organization and gene regulation involving microsatellites.