AbstractTranscription Factors (TFs) are proteins that control the flow of genetic information by regulating cellular gene expression. Here we describe PredicTF, a first platform supporting the prediction and classification of novel bacterial TF in complex microbial communities. We evaluated PredicTF using a two-step approach. First, we tested PredictTF's ability to predict TFs for the genome of an environmental isolate. In the second evaluation step, PredicTF was used to predict TFs in a metagenome and 11 metatranscriptomes recovered from a community performing anaerobic ammonium oxidation (anammox) in a bioreactor. PredicTF is open source pipeline available at https://github.com/mdsufz/PredicTF.
%0 Unpublished Work
%1 Oliveira_Monteiro2021-ua
%A Oliveira Monteiro, Lummy Maria
%A Saraiva, Joao
%A Toscan, Rodolfo Brizola
%A Stadler, Peter F
%A Silva-Rocha, Rafael
%A da Rocha, Ulisses Nunes
%D 2021
%J bioRxiv
%K
%T PredicTF: a tool to predict bacterial transcription factors in complex microbial communities
%X AbstractTranscription Factors (TFs) are proteins that control the flow of genetic information by regulating cellular gene expression. Here we describe PredicTF, a first platform supporting the prediction and classification of novel bacterial TF in complex microbial communities. We evaluated PredicTF using a two-step approach. First, we tested PredictTF's ability to predict TFs for the genome of an environmental isolate. In the second evaluation step, PredicTF was used to predict TFs in a metagenome and 11 metatranscriptomes recovered from a community performing anaerobic ammonium oxidation (anammox) in a bioreactor. PredicTF is open source pipeline available at https://github.com/mdsufz/PredicTF.
@unpublished{Oliveira_Monteiro2021-ua,
abstract = {AbstractTranscription Factors (TFs) are proteins that control the flow of genetic information by regulating cellular gene expression. Here we describe PredicTF, a first platform supporting the prediction and classification of novel bacterial TF in complex microbial communities. We evaluated PredicTF using a two-step approach. First, we tested PredictTF's ability to predict TFs for the genome of an environmental isolate. In the second evaluation step, PredicTF was used to predict TFs in a metagenome and 11 metatranscriptomes recovered from a community performing anaerobic ammonium oxidation (anammox) in a bioreactor. PredicTF is open source pipeline available at https://github.com/mdsufz/PredicTF.},
added-at = {2024-09-10T11:56:37.000+0200},
author = {Oliveira Monteiro, Lummy Maria and Saraiva, Joao and Toscan, Rodolfo Brizola and Stadler, Peter F and Silva-Rocha, Rafael and da Rocha, Ulisses Nunes},
biburl = {https://puma.scadsai.uni-leipzig.de/bibtex/2fac3b21b235d1fe6cb1dbccd1beb6032/scadsfct},
institution = {bioRxiv},
interhash = {b62a4bd2c2985bb29013a8019715a152},
intrahash = {fac3b21b235d1fe6cb1dbccd1beb6032},
journal = {bioRxiv},
keywords = {},
month = jan,
timestamp = {2024-09-10T15:15:57.000+0200},
title = {{PredicTF}: a tool to predict bacterial transcription factors in complex microbial communities},
year = 2021
}
