OpenContami: a web-based application for detecting microbial contaminants in next-generation sequencing data.

ABSTRACT:

Summary

Microorganisms infect and contaminate eukaryotic cells during the course of biological experiments. Because microbes influence host cell biology and may therefore lead to erroneous conclusions, a computational platform that facilitates decontamination is indispensable. Recent studies show that next-generation sequencing (NGS) data can be used to identify the presence of exogenous microbial species. Previously, we proposed an algorithm to improve detection of microbes in NGS data. Here, we developed an online application, OpenContami, which allows researchers easy access to the algorithm via interactive web-based interfaces. We have designed the application by incorporating a database comprising analytical results from a large-scale public dataset and data uploaded by users.

SUBMITTER: Park SJ 

PROVIDER: S-EPMC8479661 | biostudies-literature | 2021 Sep

REPOSITORIES: biostudies-literature