MacSyFinder: a program to mine genomes for molecular systems with an application to CRISPR-Cas systems.

ABSTRACT:

Motivation

Biologists often wish to use their knowledge on a few experimental models of a given molecular system to identify homologs in genomic data. We developed a generic tool for this purpose.

Results

Macromolecular System Finder (MacSyFinder) provides a flexible framework to model the properties of molecular systems (cellular machinery or pathway) including their components, evolutionary associations with other systems and genetic architecture. Modelled features also include functional analogs, and the multiple uses of a same component by different systems. Models are used to search for molecular systems in complete genomes or in unstructured data like metagenomes. The components of the systems are searched by sequence similarity using Hidden Markov model (HMM) protein

SUBMITTER: Abby SS 

PROVIDER: S-EPMC4201578 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature