Database Commons

a catalog of biological databases

e.g., animal; RNA; Methylation; China

Database Profile

General information

URL: https://bigfam.bioinformatics.nl
Full name: Biosynthetic Gene Cluster Family (GCF) database
Description: The Biosynthetic Gene Cluster Family (GCF) database is an online repository for "homologous" groups of biosynthetic gene clusters (BGCs) putatively encoding the production of similar specialized metabolites
Year founded: 2020
Last update:
Version:
Accessibility:
Manual:
Accessible
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Country/Region: Netherlands
Data type:
DNA
Data object:
NA
Database category:
Major organism:
NA
Keywords:

Contact information

University/Institution: Wageningen University
Address: Bioinformatics Group, Wageningen University, 6708PB Wageningen, The Netherlands
City: Wageningen
Province/State:
Country/Region: Netherlands
Contact name (PI/Team): Marnix H. Medema
Contact email (PI/Helpdesk): marnix.medema@wur.nl

Publications

33010170
BiG-FAM: the biosynthetic gene cluster families database. [PMID: 33010170]
Satria A Kautsar, Kai Blin, Simon Shaw, Tilmann Weber, Marnix H Medema

Computational analysis of biosynthetic gene clusters (BGCs) has revolutionized natural product discovery by enabling the rapid investigation of secondary metabolic potential within microbial genome sequences. Grouping homologous BGCs into Gene Cluster Families (GCFs) facilitates mapping their architectural and taxonomic diversity and provides insights into the novelty of putative BGCs, through dereplication with BGCs of known function. While multiple databases exist for exploring BGCs from publicly available data, no public resources exist that focus on GCF relationships. Here, we present BiG-FAM, a database of 29,955 GCFs capturing the global diversity of 1,225,071 BGCs predicted from 209,206 publicly available microbial genomes and metagenome-assembled genomes (MAGs). The database offers rich functionalities, such as multi-criterion GCF searches, direct links to BGC databases such as antiSMASH-DB, and rapid GCF annotation of user-supplied BGCs from antiSMASH results. BiG-FAM can be accessed online at https://bigfam.bioinformatics.nl.

Nucleic Acids Res. 2020:() | 4 Citations (from Europe PMC, 2021-02-20)

Ranking

All databases:
1592/4799 (66.847%)
Gene genome and annotation:
485/1327 (63.527%)
1592
Total Rank
4
Citations
4
z-index

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Record metadata

Created on: 2020-11-10
Curated by:
lin liu [2021-02-23]
Ruru Chen [2020-11-28]
Chang Liu [2020-11-10]