Sequence databases: Difference between revisions
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[https://antismash-db.secondarymetabolites.org/ AntiSMASH DB] <sup>1</sup> | [https://antismash-db.secondarymetabolites.org/ AntiSMASH DB] <sup>1</sup> | ||
It is possible to browse the database by phylogeny or secondary metabolite type, giving an exploratory overview of the avaliable biosynthetic gene cluster predictions | |||
[https://mibig.secondarymetabolites.org/ MIBiG] <sup>2</sup> | [https://mibig.secondarymetabolites.org/ MIBiG] <sup>2</sup> | ||
*Minimal information for Biosynthetic gene clusters | *Minimal information for Biosynthetic gene clusters | ||
The Minimum Information about a Biosynthetic Gene cluster (MIBiG) specification provides a robust community standard for annotations and metadata on biosynthetic gene clusters and their molecular products. MIBiG is a Genomic Standards Consortium project that builds on the Minimum Information about any Sequence (MIxS) framework. | |||
[https://bigfam.bioinformatics.nl/home BIG FAM] <sup>3</sup> | [https://bigfam.bioinformatics.nl/home BIG FAM] <sup>3</sup> | ||
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). | |||
#Kai Blin; Simon Shaw; Satria A. Kautsar; Marnix H. Medema; Tilmann Weber. (2020) The antiSMASH database version 3: increased taxonomic coverage and new query features for modular enzymes< em> Nucleic Acids Research </em>, gkaa978; doi: 10.1093/nar/gkaa978 | #Kai Blin; Simon Shaw; Satria A. Kautsar; Marnix H. Medema; Tilmann Weber. (2020) The antiSMASH database version 3: increased taxonomic coverage and new query features for modular enzymes< em> Nucleic Acids Research </em>, gkaa978; doi: 10.1093/nar/gkaa978 | ||
#Satria A Kautsar, Kai Blin, Simon Shaw, Jorge C Navarro-Muñoz, Barbara R Terlouw, Justin J J van der Hooft, Jeffrey A van Santen, Vittorio Tracanna, Hernando G Suarez Duran, Victòria Pascal Andreu, Nelly Selem-Mojica, Mohammad Alanjary, Serina L Robinson, George Lund, Samuel C Epstein, Ashley C Sisto, Louise K Charkoudian, Jérôme Collemare, Roger G Linington, Tilmann Weber, Marnix H Medema, (2020) MIBiG 2.0: a repository for biosynthetic gene clusters of known function, <em>Nucleic Acids Research</em>, Volume 48, Issue D1, 08 January 2020, Pages D454–D458, https://doi.org/10.1093/nar/gkz882 | #Satria A Kautsar, Kai Blin, Simon Shaw, Jorge C Navarro-Muñoz, Barbara R Terlouw, Justin J J van der Hooft, Jeffrey A van Santen, Vittorio Tracanna, Hernando G Suarez Duran, Victòria Pascal Andreu, Nelly Selem-Mojica, Mohammad Alanjary, Serina L Robinson, George Lund, Samuel C Epstein, Ashley C Sisto, Louise K Charkoudian, Jérôme Collemare, Roger G Linington, Tilmann Weber, Marnix H Medema, (2020) MIBiG 2.0: a repository for biosynthetic gene clusters of known function, <em>Nucleic Acids Research</em>, Volume 48, Issue D1, 08 January 2020, Pages D454–D458, https://doi.org/10.1093/nar/gkz882 | ||
#Satria A Kautsar, Kai Blin, Simon Shaw, Tilmann Weber, Marnix H Medema, BiG-FAM: the biosynthetic gene cluster families database, (2021) <em> Nucleic Acids Research</em>, Volume 49, Issue D1, Pages D490–D497, https://doi.org/10.1093/nar/gkaa812 | #Satria A Kautsar, Kai Blin, Simon Shaw, Tilmann Weber, Marnix H Medema, BiG-FAM: the biosynthetic gene cluster families database, (2021) <em> Nucleic Acids Research</em>, Volume 49, Issue D1, Pages D490–D497, https://doi.org/10.1093/nar/gkaa812 | ||
Revision as of 00:18, 18 November 2021
AntiSMASH DB 1 It is possible to browse the database by phylogeny or secondary metabolite type, giving an exploratory overview of the avaliable biosynthetic gene cluster predictions
MIBiG 2
- Minimal information for Biosynthetic gene clusters
The Minimum Information about a Biosynthetic Gene cluster (MIBiG) specification provides a robust community standard for annotations and metadata on biosynthetic gene clusters and their molecular products. MIBiG is a Genomic Standards Consortium project that builds on the Minimum Information about any Sequence (MIxS) framework.
BIG FAM 3
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).
- Kai Blin; Simon Shaw; Satria A. Kautsar; Marnix H. Medema; Tilmann Weber. (2020) The antiSMASH database version 3: increased taxonomic coverage and new query features for modular enzymes< em> Nucleic Acids Research , gkaa978; doi: 10.1093/nar/gkaa978
- Satria A Kautsar, Kai Blin, Simon Shaw, Jorge C Navarro-Muñoz, Barbara R Terlouw, Justin J J van der Hooft, Jeffrey A van Santen, Vittorio Tracanna, Hernando G Suarez Duran, Victòria Pascal Andreu, Nelly Selem-Mojica, Mohammad Alanjary, Serina L Robinson, George Lund, Samuel C Epstein, Ashley C Sisto, Louise K Charkoudian, Jérôme Collemare, Roger G Linington, Tilmann Weber, Marnix H Medema, (2020) MIBiG 2.0: a repository for biosynthetic gene clusters of known function, Nucleic Acids Research, Volume 48, Issue D1, 08 January 2020, Pages D454–D458, https://doi.org/10.1093/nar/gkz882
- Satria A Kautsar, Kai Blin, Simon Shaw, Tilmann Weber, Marnix H Medema, BiG-FAM: the biosynthetic gene cluster families database, (2021) Nucleic Acids Research, Volume 49, Issue D1, Pages D490–D497, https://doi.org/10.1093/nar/gkaa812
