PaintOmics 4: new tools for the integrative analysis of multi-omics datasets supported by multiple pathway databases.
Nucleic Acids Res
; 50(W1): W551-W559, 2022 07 05.
Article
em En
| MEDLINE
| ID: mdl-35609982
ABSTRACT
PaintOmics is a web server for the integrative analysis and visualisation of multi-omics datasets using biological pathway maps. PaintOmics 4 has several notable updates that improve and extend analyses. Three pathway databases are now supported KEGG, Reactome and MapMan, providing more comprehensive pathway knowledge for animals and plants. New metabolite analysis methods fill gaps in traditional pathway-based enrichment methods. The metabolite hub analysis selects compounds with a high number of significant genes in their neighbouring network, suggesting regulation by gene expression changes. The metabolite class activity analysis tests the hypothesis that a metabolic class has a higher-than-expected proportion of significant elements, indicating that these compounds are regulated in the experiment. Finally, PaintOmics 4 includes a regulatory omics module to analyse the contribution of trans-regulatory layers (microRNA and transcription factors, RNA-binding proteins) to regulate pathways. We show the performance of PaintOmics 4 on both mouse and plant data to highlight how these new analysis features provide novel insights into regulatory biology. PaintOmics 4 is available at https//paintomics.org/.
Texto completo:
1
Base de dados:
MEDLINE
Assunto principal:
MicroRNAs
/
Multiômica
Limite:
Animals
Idioma:
En
Ano de publicação:
2022
Tipo de documento:
Article