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fusionDB: assessing microbial diversity and environmental preferences via functional similarity networks
[article]
2016
bioRxiv
pre-print
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Moreover, the web interface allows mapping new microbial genomes to the functional spectrum of reference bacteria, rendering interactive similarity networks that highlight shared functionality. fusionDB ...
Users can search fusionDB via combinations of organism names and metadata. ...
Burkhard Rost (TU Munich), Max Haggblom and Tamar Barkay (both 10 Rutgers), and Tom O. Delmont (U Chicago) for all discussions and to those who ...
doi:10.1101/035923
fatcat:wfjyszjv3bh7vdjnmpun67kdtu
fusionDB: assessing microbial diversity and environmental preferences via functional similarity networks
2017
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 2019; you can also visit the original URL.
The file type is application/pdf.
Users can search fusionDB via combinations of organism names and metadata. ...
Moreover, the web interface allows mapping new microbial genomes to the functional spectrum of reference bacteria, rendering interactive similarity networks that highlight shared functionality. fusionDB ...
We are also grateful to all those who deposit their data in public databases -fusionDB wouldn't be possible without them. ...
doi:10.1093/nar/gkx1060
pmid:29112720
pmcid:PMC5753390
fatcat:ejqpk3qidvecraq3czdennosz4
Functional analysis of microbial genomes and metagenomes
2017
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We deposit the functional data in fusionDB, mapping bacteria and their functions to available metadata: habitat/niche, preferred temperature, and oxygen use. ...
In the fusion (functional-repertoire similarity-based organism network) representation, organisms can be consistently assigned to groups based on a quantitative measure of their functional similarities ...
It further places this microbe into a context of other reference organisms and relates the identified microbial function to the preferred environmental conditions. ...
doi:10.7282/t3dv1ntf
fatcat:ispzaemtsndvtksnfrnd4osc3m
Burkholderia fungorum strain Rifle
2017
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The draft genome was assembled and annotated for prospective gene functions. ...
To identify the capability of Burkholderia fungorum strain Rifle to precipitate elevated levels uranium, cultures were grown aerobically in the absence and presence of uranium (0-200 μM). ...
the Burkholderia fungorum Rifle genome via BLAST to assess protein similarity and possible function. ...
doi:10.7282/t3cz3b9g
fatcat:kz3uw5xwobcevjunkh4nqk36gm
Computational investigations of divalent heavy metal ion homeostasis
[article]
2018
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preliminary genomic sequence of R. metallidurans, without which this study would not have been Acknowledgments This work was supported by Graduiertenkolleg ''Stress'' of the Deutsche Forschungsgemeinschaft and ...
of DNA derived from diverse and mixed microbial communities (environmental genomics or ecogenomics)
Metal Chelates Polydentate ring forming ligand groups working as chelating agents Metalloproteins Proteins ...
Diversity of the Burkholderia cepacia complex and implications for risk assessment of biological control strains. Annu Rev Phytopathol. 39:225-258. ...
doi:10.25673/303
fatcat:abeyszkwuja2vfpvey2ownigze