Identifying Group-Specific Sequences for Microbial Communities Using Long k-mer Sequence Signatures.

ABSTRACT: Comparing metagenomic samples is crucial for understanding microbial communities. For different groups of microbial communities, such as human gut metagenomic samples from patients with a certain disease and healthy controls, identifying group-specific sequences offers essential information for potential biomarker discovery. A sequence that is present, or rich, in one group, but absent, or scarce, in another group is considered "group-specific" in our study. Our main purpose is to discover group-specific sequence regions between control and case groups as disease-associated markers. We developed a long k-mer (k ≥ 30 bps)-based computational pipeline to detect group-specific sequences at strain resolution free from reference sequences, sequence alig

SUBMITTER: Wang Y 

PROVIDER: S-EPMC5943621 | biostudies-literature | 2018

REPOSITORIES: biostudies-literature