Streamlined computational pipeline for genetic background characterization of genetically engineered mice based on next generation sequencing data.

ABSTRACT:

Background

Genetically engineered mice (GEM) are essential tools for understanding gene function and disease modeling. Historically, gene targeting was first done in embryonic stem cells (ESCs) derived from the 129 family of inbred strains, leading to a mixed background or congenic mice when crossed with C57BL/6 mice. Depending on the number of backcrosses and breeding strategies, genomic segments from 129-derived ESCs can be introgressed into the C57BL/6 genome, establishing a unique genetic makeup that needs characterization in order to obtain valid conclusions from experiments using GEM lines. Currently, SNP genotyping is used to detect the extent of 129-derived ESC genome introgression into C57BL/6 recipients; however, it fails to detect novel/rare variants.

Results

Here

SUBMITTER: Farkas C 

PROVIDER: S-EPMC6373082 | biostudies-literature | 2019 Feb

REPOSITORIES: biostudies-literature