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A Rat Methyl-Seq Platform to Identify Epigenetic Changes Associated with Stress Exposure

A Rat Methyl-Seq Platform to Identify Epigenetic Changes Associated with Stress Exposure

Published on: October 24, 2018

Coding variants in mouse and rat model organisms: mousepost and ratpost.

Steven Timmermans^1,2, Claude Libert^3,4

¹VIB-Ugent Center of Inflammation Research, Ghent, Belgium.

Mammalian Genome : Official Journal of the International Mammalian Genome Society

|July 27, 2021

Summary

This summary is machine-generated.

Mouse and rat sequence variants are mostly species-specific, but Mousepost and Ratpost databases reveal some conserved positions. These resources aid biomedical research by cataloging genetic variations in model organisms.

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Area of Science:

Biomedical Research
Genomics
Bioinformatics

Background:

Mice and rats are key vertebrate model organisms in biomedical research.
Reference genomes and deep sequencing provide rich sequence variation data in these species.
Sequence variants can be linked to distinct phenotypes, aiding genetic studies.

Purpose of the Study:

To compare the Mousepost and Ratpost databases for mouse and rat sequence variants.
To couple these databases with human sequence variants from ClinVar.
To investigate the redundancy and complementarity of known variants in protein-coding transcripts.

Main Methods:

Created searchable online databases (Mousepost and Ratpost) for small variant information in protein-coding transcripts of mouse and rat inbred strains.
Retrieved variant information at the amino acid level.
Compared Mousepost and Ratpost, and coupled them with the human ClinVar database.

Main Results:

The large majority of sequence variants in protein-coding transcripts are species-specific between mice and rats.
A small number of variant positions are conserved between mouse and rat inbred lines.
Mousepost and Ratpost databases demonstrate high complementarity.

Conclusions:

Mousepost and Ratpost are valuable, complementary resources for accessing sequence variation data in mouse and rat model organisms.
The findings highlight the species-specific nature of most variants but also identify conserved positions.
Further sequencing efforts may alter the observed complementarity between mouse and rat variant data.