| URL: | http://funagepro.molgenrug.nl |
| Full name: | FUNctional Analyis and Gene set Enrichment for Prokaryotes |
| Description: | Gene set enrichment analysis is a method to identify overrepresented functional classes in sets of genes or proteins. FUNAGE-Pro can uncover biological functions in gene sets derived from differential genes/proteins expression analysis of any bacterial genome. Next to a single list of genes, it support analysis of multiple experiments, time-series, clusters (e.g., k-means clusters) and network modules. For all complete bacterial genomes of RefSeq and Genbank (>50.000) we (re-)constructed databases for nine important functional protein classifications; GO, COG, EggNOG-COG, EggNOG, InterPro, KEGG, PFAM, KEYWORDS and OPERONS. |
| Year founded: | 2022 |
| Last update: | |
| Version: | |
| Accessibility: |
Accessible
|
| Country/Region: | Netherlands |
| Data type: | |
| Data object: | |
| Database category: | |
| Major species: |
NA
|
| Keywords: |
| University/Institution: | University of Groningen |
| Address: | Department of Molecular Genetics, University of Groningen, Nijenborgh 7, 9747 AG Groningen, the Netherlands |
| City: | |
| Province/State: | |
| Country/Region: | Netherlands |
| Contact name (PI/Team): | Anne de Jong |
| Contact email (PI/Helpdesk): | anne.de.jong@rug.nl |
|
FUNAGE-Pro: comprehensive web server for gene set enrichment analysis of prokaryotes. [PMID: 35641095]
Recent advances in the field of high throughput (meta-)transcriptomics and proteomics call for easy and rapid methods enabling to explore not only single genes or proteins but also extended biological systems. Gene set enrichment analysis is commonly used to find relations in a set of genes and helps to uncover the biological meaning in results derived from high-throughput data. The basis for gene set enrichment analysis is a solid functional classification of genes. Here, we describe a comprehensive database containing multiple functional classifications of genes of all (>55 000) publicly available complete bacterial genomes. In addition to the most common functional classes such as COG and GO, also KEGG, InterPro, PFAM, eggnog and operon classes are supported. As classification data for features is often not available, we offer fast annotation and classification of proteins in any newly sequenced bacterial genome. The web server FUNAGE-Pro enables fast functional analysis on single gene sets, multiple experiments, time series data, clusters, and gene network modules for any prokaryote species or strain. FUNAGE-Pro is freely available at http://funagepro.molgenrug.nl. |