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<h1 class="border-0 font-weight-bold mb-4">BugSigDB</h1> | |||
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A Comprehensive Database of Published Microbial Signatures | |||
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BugSigDB.org (published in '''[https://www.nature.com/articles/s41587-023-01872-y Nature Biotechnology''']) is a community-editable [https://www.semantic-mediawiki.org Semantic Mediawiki knowledge management system]. Its primary functions include '''1. standardization''' of key elements of published microbiome studies using ontologies and the NCBI taxonomy, '''2. [https://bugsigdb.org/Special:RunQuery/Drill?Drill%5BCondition%20logic%5D=AND&Drill%5BLocation%20logic%5D=AND&Drill%5BSite%20logic%5D=AND&_run=1 searchability]''', '''3. Enrichment Analysis''' using [[Help:Export|bulk exports]], [https://github.com/waldronlab/BugSigDBExports GMT files], or other software (e.g. [https://bioconductor.org/packages/bugsigdbr/ bugsigdbr]), and '''4. community interaction:''' you can [[Special:RequestAccount|request an account]], [[Help:Contents|contribute or analyze]], learn [[Project:About|about]] the project, [https://github.com/waldronlab/BugSigDB/issues report issues], and ask questions on the [https://community-bioc.slack.com/archives/C04RATV9VCY/p1697144958544289 #bugsigdb channel] of the [https://slack.bioconductor.org/ community-bioc Slack team]. This collaborative effort aims to accelerate microbiome research by providing a comprehensive database of microbial signatures from published studies, along with relevant information on study design and geography, health outcomes, host body site, and experimental methods. | |||
[[Project:About|<span class="mw-ui-button mw-ui-progressive float-right mt-3">About this project</span>]] | |||
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{{Random taxon}}{{Random study|2}} | |||
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* | <div id="taxonFilter" class="w-100 w-lg-50">{{:Special:RunQuery/Taxon filter}}</div> | ||
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<div class="card-body d-flex align-items-center justify-content-between"><small>Fuzzy {{!}} Parameterized {{!}} Logical operators » {{#queryformlink: form=Drill | |||
|link text=Example | |||
|Drill[Condition logic]=AND | |||
|Drill[Location logic]=AND | |||
|Drill[Site logic]=AND | |||
|Drill[Condition]=~*cancer* | |||
|_run=1 | |||
}}</small>{{#queryformlink: form=Drill | |||
|link text=<span class="mw-ui-button mw-ui-destructive">Advanced Search</span> | |||
|Drill[Condition logic]=AND | |||
|Drill[Location logic]=AND | |||
|Drill[Site logic]=AND | |||
|_run=1 | |||
}} | |||
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<div class="card-header text-secondary px-3 py-2 font-weight-bold">Statistics</div> | |||
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{{MediaWiki:Statistics-footer}} | |||
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<div class="card-footer py-2">{{#queryformlink: form=Drilldown|link text=<span class="mw-ui-button mw-ui-quiet text-primary pl-0 pr-1">Browse all studies</span>|_run=1}} <small>by Host species {{!}} Body site {{!}} Condition {{!}} Taxa {{!}} Location of subjects.</small> | |||
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<div class="card-header font-weight-bold">Top 5 Contributors in the last 30 days</div> | |||
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{{Special:ContributionScores/5/30/notools}} | |||
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<div class="card-footer py-2">[[Special:ContributionScores|<span class="mw-ui-button mw-ui-quiet text-primary pl-0 pr-1">Extended Statistics</span>]]</div> | |||
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Latest revision as of 14:32, 21 February 2024
BugSigDB
A Comprehensive Database of Published Microbial Signatures
BugSigDB.org (published in Nature Biotechnology) is a community-editable Semantic Mediawiki knowledge management system. Its primary functions include 1. standardization of key elements of published microbiome studies using ontologies and the NCBI taxonomy, 2. searchability, 3. Enrichment Analysis using bulk exports, GMT files, or other software (e.g. bugsigdbr), and 4. community interaction: you can request an account, contribute or analyze, learn about the project, report issues, and ask questions on the #bugsigdb channel of the community-bioc Slack team. This collaborative effort aims to accelerate microbiome research by providing a comprehensive database of microbial signatures from published studies, along with relevant information on study design and geography, health outcomes, host body site, and experimental methods.
1573535Featured TaxonHoldemanella(genus)
- BugSigDB Statistics
- Number of studies: 38 (filter)
- Number of signatures: 53
- Number of direct descendants: 3
Study by nameFeatured Studies
Association of dietary fibre intake and gut microbiota in adults
The British journal of nutrition, 2018 | Feces | Diet | United States of America
The British journal of nutrition, 2018 | Feces | Diet | United States of America
Gut Microbiome Influences the Efficacy of PD-1 Antibody Immunotherapy on MSS-Type Colorectal Cancer via Metabolic Pathway
Frontiers in microbiology, 2020 | Feces | Antimicrobial agent | China
Frontiers in microbiology, 2020 | Feces | Antimicrobial agent | China
Fuzzy | Parameterized | Logical operators » Example
Statistics
- 1399 studies
- 7582 signatures
- 2195 unique taxa
- 44 host species
- 94 locations
- 173 body sites
- 518 conditions
- contributed by 178 contributors
Top 5 Contributors in the last 30 days
Last 30 days (Top 5) |
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