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MetaMetaDB specifications

Information


Unique identifier OMICS_21369
Name MetaMetaDB
Alternative name Meta- Metagenomic Data Base
Restrictions to use None
Community driven No
Data access File download, Browse
User data submission Not allowed
Maintained Yes

Maintainer


  • person_outline Ching-Chia Yang

Publication for Meta- Metagenomic Data Base

MetaMetaDB citations

 (3)
library_books

Generalist species drive microbial dispersion and evolution

2017
Nat Commun
PMCID: 5660117
PMID: 29079803
DOI: 10.1038/s41467-017-01265-1

[…] himera sequences. In total, our processed data set contained 2,737,833 predicted 16S rRNA sequence fragments with an average length of 362 bp. The list of processed 16S rRNA sequences can be found on MetaMetaDB’s server at http://mmdb.aori.u-tokyo.ac.jp/archive.html. […]

library_books

Seasonal Analysis of Microbial Communities in Precipitation in the Greater Tokyo Area, Japan

2017
Front Microbiol
PMCID: 5554504
PMID: 28848519
DOI: 10.3389/fmicb.2017.01506

[…] t the SILVA database (Quast et al., ) and retrieving the top hit sequence that showed e-values ≤ 1E-15. To estimate ordinary habitats for each 16S rRNA sequence, a BLASTN search was performed against MetaMetaDB (Yang and Iwasaki, ), and the top hit sequence with an e-value ≤ 1E-10 and an identity ≥ 90% was retrieved. Microbial habitability index (MHI) scores were calculated as previously described […]

library_books

Genomic and metagenomic analysis of microbes in a soil environment affected by the 2011 Great East Japan Earthquake tsunami

2016
BMC Genomics
PMCID: 4712596
PMID: 26764021
DOI: 10.1186/s12864-016-2380-4

[…] ts the similar overall chemical characteristics between the two soil samples. In addition, we estimated the typical habitats of the contained microbes by querying the extracted 16S rRNA genes against MetaMetaDB [], a database that links 16S rRNA gene sequences to environments based on comprehensive analysis of published metagenomic and amplicon-sequencing datasets. The estimated habitats quantifie […]

Citations

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MetaMetaDB institution(s)
Atmosphere and Ocean Research Institute, the University of Tokyo, Kashiwa, Chiba, Japan
MetaMetaDB funding source(s)
Supported by the CREST Program from the Japan Science and Technology Agency and Grant-in-Aid for Young Scientists (B) [grant number 23710231] from the Japan Society for the Promotion of Science.

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