Integrated de novo gene prediction and peptide assembly of metagenomic sequencing data.

ABSTRACT: Metagenomics is the study of all genomic content contained in given microbial communities. Metagenomic functional analysis aims to quantify protein families and reconstruct metabolic pathways from the metagenome. It plays a central role in understanding the interaction between the microbial community and its host or environment. De novo functional analysis, which allows the discovery of novel protein families, remains challenging for high-complexity communities. There are currently three main approaches for recovering novel genes or proteins: de novo nucleotide assembly, gene calling and peptide assembly. Unfortunately, their information dependency has been overlooked, and each has been formulated as an independent problem. In this work, we develop a sophisticated workflow ca

SUBMITTER: Thippabhotla S 

PROVIDER: S-EPMC10006731 | biostudies-literature | 2023 Mar

REPOSITORIES: biostudies-literature