AIMC Topic: Interspersed Repetitive Sequences

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Machine learning reveals the dynamic importance of accessory sequences for outbreak clustering.

mBio
UNLABELLED: Bacterial typing at whole-genome scales is now feasible owing to decreasing costs in high-throughput sequencing and the recent advances in computation. The unprecedented resolution of whole-genome typing is achieved by genotyping the vari...

Towards better prediction of Mycobacterium tuberculosis lineages from MIRU-VNTR data.

Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases
The determination of lineages from strain-based molecular genotyping information is an important problem in tuberculosis. Mycobacterial interspersed repetitive unit-variable number tandem repeat (MIRU-VNTR) typing is a commonly used molecular genotyp...

DeepMobilome: predicting mobile genetic elements using sequencing reads of microbiomes.

Briefings in bioinformatics
MOTIVATION: Mobile genetic elements (MGEs) play an important role in facilitating the acquisition of antibiotic resistance genes (ARGs) within microbial communities, significantly impacting the evolution of antibiotic resistance. Understanding the me...