CSN: unsupervised approach for inferring biological networks based on the genome alone.

ABSTRACT: BACKGROUND:Most organisms cannot be cultivated, as they live in unique ecological conditions that cannot be mimicked in the lab. Understanding the functionality of those organisms' genes and their interactions by performing large-scale measurements of transcription levels, protein-protein interactions or metabolism, is extremely difficult and, in some cases, impossible. Thus, efficient algorithms for deciphering genome functionality based only on the genomic sequences with no other experimental measurements are needed. RESULTS:In this study, we describe a novel algorithm that infers gene networks that we name Common Substring Network (CSN). The algorithm enables inferring novel regulatory relations among genes based only on the genomic sequence of a given organism and partial homolog/ortho

SUBMITTER: Galili M 

PROVIDER: S-EPMC7227238 | biostudies-literature | 2020 May

REPOSITORIES: biostudies-literature