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TerrestrialMetagenomeDB: a public repository of curated and standardized metadata for terrestrial metagenomes
2019
Nucleic Acids Research
Preserved Fulltext
The main goal of TerrestrialMetagenomeDB is to make it easier for scientists to find terrestrial metagenomes of interest that could be compared with novel datasets in meta-analyses. ...
MG-RAST and the Sequence Read Archive (SRA), the two main metagenome repositories, contain over 202 858 public available metagenomes and this number has increased exponentially. ...
ACKNOWLEDGEMENTS We thank Natascha Menezes Bergo for testing the Terres-trialMetagenomeDB web application and Rodolfo Brizola Toscan for creating the script to download the sequencing data. ...
doi:10.1093/nar/gkz994
pmid:31728526
pmcid:PMC7145636
fatcat:lb642kyrsjcwpmqsir3nwanldq
TerrestrialMetagenomeDB: a public repository of curated and standardized metadata for terrestrial metagenomes
[article]
2019
bioRxiv
pre-print
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2020; you can also visit the original URL.
The file type is application/pdf.
The main goal of TerrestrialMetagenomeDB is to make it easier for scientists to find terrestrial metagenomes of interest that could be compared with novel datasets in meta-analyses. ...
MG-RAST and the Sequence Read Archive (SRA), the two main metagenome repositories, contain over 202 858 public available metagenomes and this number has increased exponentially. ...
The other 12 terrestrial categories defined in this work appeared in a lower frequency. 10%), and all the others were available in less than 5% of the metagenomes metadata. ...
doi:10.1101/796441
fatcat:ba7yokvegfgnnmyxf5i5hgfzc4
HumanMetagenomeDB: a public repository of curated and standardized metadata for human metagenomes
2020
Nucleic Acids Research
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2021; you can also visit the original URL.
The file type is application/pdf.
Currently, the number of metagenomes in public repositories is increasing exponentially. The Sequence Read Archive (SRA) and the MG-RAST are the two main repositories for metagenomic data. ...
The main goal of the HumanMetagenomeDB is to simplify the identification and use of public human metagenomes of interest. HumanMetagenomeDB version 1.0 contains metadata of 69 822 metagenomes. ...
We are grateful to Sandra Cristina Godinho Pires da Silva for the valuable insights during the metadata collection. We have gratitude to Camila Lima Zanini for her view on the development ...
doi:10.1093/nar/gkaa1031
pmid:33221926
fatcat:fifchpf4wvek3gle54egzwsaxi
Planet Microbe: a platform for marine microbiology to discover and analyze interconnected 'omics and environmental data
2020
Nucleic Acids Research
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2020; you can also visit the original URL.
The file type is application/pdf.
This work highlights the need for curated aggregation efforts that can enable new insights into high-quality metagenomic datasets. ...
In recent years, large-scale oceanic sequencing efforts have provided a deeper understanding of marine microbial communities and their dynamics. ...
ACKNOWLEDGEMENTS We thank the members of the Hurwitz Lab for comments on the Planet Microbe interface and feedback on the manuscript. ...
doi:10.1093/nar/gkaa637
pmid:32735679
fatcat:tq5xr4bzmnhvlorrsuh3n43qpa
Planet Microbe: a platform for marine microbiology to discover and analyze interconnected 'omics and environmental data
[article]
2020
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2020; you can also visit the original URL.
The file type is application/pdf.
This work highlights the need for curated aggregation efforts that can enable new insights into high-quality metagenomic datasets. ...
In recent years, large-scale oceanic sequencing efforts have provided a deeper understanding of marine microbial communities and their dynamics. ...
ACKNOWLEDGEMENTS We thank the members of the Hurwitz Lab for comments on the Planet Microbe interface and feedback on the manuscript. ...
doi:10.25607/obp-961
fatcat:ljd4pf5yergwrfby2dy5gfaewa