PredicTF: prediction of bacterial transcription factors in complex microbial communities using deep learning.

ABSTRACT:

Background

Transcription factors (TFs) are proteins controlling the flow of genetic information by regulating cellular gene expression. A better understanding of TFs in a bacterial community context may open novel revenues for exploring gene regulation in ecosystems where bacteria play a key role. Here we describe PredicTF, a platform supporting the prediction and classification of novel bacterial TF in single species and complex microbial communities. PredicTF is based on a deep learning algorithm.

Results

To train PredicTF, we created a TF database (BacTFDB) by manually curating a total of 11,961 TF distributed in 99 TF families. Five model organisms were used to test the performance and the accuracy of PredicTF. PredicTF was able to identify 24-62% of the known TFs with a

SUBMITTER: Oliveira Monteiro LM 

PROVIDER: S-EPMC8822659 | biostudies-literature | 2022 Feb

REPOSITORIES: biostudies-literature