MODifieR: an Ensemble R Package for Inference of Disease Modules from Transcriptomics Networks.
Bioinformatics
; 36(12): 3918-3919, 2020 06 01.
Article
em En
| MEDLINE
| ID: mdl-32271876
ABSTRACT
MOTIVATION Complex diseases are due to the dense interactions of many disease-associated factors that dysregulate genes that in turn form the so-called disease modules, which have shown to be a powerful concept for understanding pathological mechanisms. There exist many disease module inference methods that rely on somewhat different assumptions, but there is still no gold standard or best-performing method. Hence, there is a need for combining these methods to generate robust disease modules. RESULTS:
We developed MODule IdentiFIER (MODifieR), an ensemble R package of nine disease module inference methods from transcriptomics networks. MODifieR uses standardized input and output allowing the possibility to combine individual modules generated from these methods into more robust disease-specific modules, contributing to a better understanding of complex diseases. AVAILABILITY AND IMPLEMENTATION MODifieR is available under the GNU GPL license and can be freely downloaded from https//gitlab.com/Gustafsson-lab/MODifieR and as a Docker image from https//hub.docker.com/r/ddeweerd/modifier. SUPPLEMENTARY INFORMATION Supplementary data are available at Bioinformatics online.
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1
Base de dados:
MEDLINE
Assunto principal:
Software
/
Biologia Computacional
Tipo de estudo:
Prognostic_studies
Idioma:
En
Revista:
Bioinformatics
Assunto da revista:
INFORMATICA MEDICA
Ano de publicação:
2020
Tipo de documento:
Article
País de afiliação:
Suécia