Comunicación

PATHMIR: WEB SERVER FOR MICRORNAS PATHWAY ENRICHMENT ANALYSIS

Autores:

MARÍA ANTONIA PARREÑO GONZÁLEZ1, FERNANDO PÉREZ SANZ1, MARÍA DEL CARMEN LEGAZ GARCÍA2, Rocío González-Conejero Hilla3, CONSTANTINO MARTÍNEZ GÓMEZ3, ÁNGEL ESTEBAN GIL2

Afiliaciones:

(1) PLATAFORMA DE INFORMÁTICA BIOMÉDICA Y BIOINFORMÁTICA, IMIB, España
(2) TECNOLOGÍAS DE MODELADO, PROCESAMIENTO Y GESTIÓN DEL CONOCIMIENTO, IMIB, España
(3) HEMATOLOGÍA Y ONCOLOGÍA MÉDICA CLÍNICO-EXPERIMENTAL, IMIB, España

Comunicación:

Antecedentes:

A common analysis when interpreting gene sets is the pathway enrichment. This approach is useful to associate these gene sets with their biological function. On the other hand, MicroRNAs are molecules that participate in the regulation of genes. PATHMiR is a web server that enables pathway enrichment analysis from MicroRNA identifiers.

Métodos:

INPUT DATA: The input data is a set of microRNA identified by the mirna name or MirTarBase ID, the species, and the type of evidence or the experiment used to validate the interaction between microRNA and gene. Other input parameters are: the p-value threshold for the significant level or HPO terms for restricting the analysis for genes related with some pathological phenotype (only for human species). OUTPUT DATA: When the web server returns the results, the user can download an HTML report with the global results or select manually those pathways more interesting for their study. By default, the charts and the network visualization are generated with the top significant pathways. The output data is a HTML report (that can be downloaded) with several charts with the pathways statistically significant. This report also includes a table (that can be exported in CSV format) with all the results of the analysis. This table includes links to the visualization of the pathway, marking the genes that are targets of our microRNAs, also includes the complete list of genes of the pathway, the complete list of targets of each microRNA, and the p-value.

Resultados:

Our approach uses KEGG (open pathway database) with miRTarBase (open MicroRNA target interaction database). In the case we are working with human beings, we can integrate information from HPO (Human Phenotype Ontology) that relate phenotypes with genes that regulate them. For the enrichment analysis we use ClusterProfiler from BioConductor. This platform have been used to analyze genetic variants in MicroRNAs implied in myocardial infarction in young people (< 40).

Conclusiones:

PathMiR, is an open web resource for the enrichment analysis of routes or terms of the Gene Ontology with miRNA identifiers (https://pathmir.imib.es/). This platform has been validated in a real cohort of patients.


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Campus de Ciencias de la Salud
Carretera Buenavista s/n, 30120 El Palmar
Murcia, España

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