Recursive random forest algorithm for constructing multilayered hierarchical gene regulatory networks that govern biological pathways.

ABSTRACT:

Background

Present knowledge indicates a multilayered hierarchical gene regulatory network (ML-hGRN) often operates above a biological pathway. Although the ML-hGRN is very important for understanding how a pathway is regulated, there is almost no computational algorithm for directly constructing ML-hGRNs.

Results

A backward elimination random forest (BWERF) algorithm was developed for constructing the ML-hGRN operating above a biological pathway. For each pathway gene, the BWERF used a random forest model to calculate the importance values of all transcription factors (TFs) to this pathway gene recursively with a portion (e.g. 1/10) of least important TFs being excluded in each round of modeling, during which, the importance values of all TFs to the pathway gene were update

SUBMITTER: Deng W 

PROVIDER: S-EPMC5291523 | biostudies-literature | 2017

REPOSITORIES: biostudies-literature