Phagefoundry Paeruginosa Genome Browser
phagefoundry_paeruginosa_genome_browser
Tenant: PhageFoundry · Snapshot 2026-04-29T21:35:53.838483+00:00
Schema status
discoveredCuration status
discoveredSource
berdl-spark-connect://metrics.berdl.kbase.us:443Citation & Attribution
Provider: PhageFoundry
Schema Browser
Tables (37)
browser_annotation browser_cazy_family browser_cog_class browser_contig browser_ec_number browser_eggnog_description browser_gene browser_genome browser_genome_tags browser_go_term browser_kegg_ortholog browser_kegg_pathway browser_kegg_reaction browser_operon browser_ortholog_group browser_protein browser_protein_cazy_families browser_protein_cog_classes browser_protein_ec_numbers browser_protein_go_terms browser_protein_kegg_orthologs browser_protein_kegg_pathways browser_protein_kegg_reactions browser_protein_ortholog_groups browser_protein_tc_families browser_regulon browser_regulon_regulators browser_sample browser_sample_metadata browser_site browser_site_genes browser_site_operons browser_strain browser_strain_metadata browser_tag browser_taxon browser_tc_familyKey Tables
| Table | Description | Rows |
|---|---|---|
browser_annotation |
— | |
browser_cazy_family |
— | |
browser_cog_class |
— | |
browser_contig |
— | |
browser_ec_number |
— | |
browser_eggnog_description |
— | |
browser_gene |
— | |
browser_genome |
— | |
browser_genome_tags |
— | |
browser_go_term |
— | |
browser_kegg_ortholog |
— | |
browser_kegg_pathway |
— | |
browser_kegg_reaction |
— | |
browser_operon |
— | |
browser_ortholog_group |
— | |
browser_protein |
— | |
browser_protein_cazy_families |
— | |
browser_protein_cog_classes |
— | |
browser_protein_ec_numbers |
— | |
browser_protein_go_terms |
— | |
browser_protein_kegg_orthologs |
— | |
browser_protein_kegg_pathways |
— | |
browser_protein_kegg_reactions |
— | |
browser_protein_ortholog_groups |
— | |
browser_protein_tc_families |
— | |
browser_regulon |
— | |
browser_regulon_regulators |
— | |
browser_sample |
— | |
browser_sample_metadata |
— | |
browser_site |
— | |
browser_site_genes |
— | |
browser_site_operons |
— | |
browser_strain |
— | |
browser_strain_metadata |
— | |
browser_tag |
— | |
browser_taxon |
— | |
browser_tc_family |
— |
Projects Using This Collection
Atlas Pages
Ecotype analyses need rigor gates before translation
Ecotype-derived target lists can collapse under leakage, confound, and independent-evidence checks, so translation requires explicit gates.
conflictEcotype labels versus translational leakage
Ecotype labels are reusable stratification products, but translational target lists can collapse when labels and outcomes share leaked or confounded features.
data typePhage, Mobile Elements, and Defense
Host-specific phage browsers, pathogen genome views, and mobile-element signals used to reason about host range, defense, resistance, and engineered interventions.
data typeHost, Clinical, Pathogen, and Isolate Data
Collections organized around host-associated samples, pathogen isolates, clinical context, or strain-level interpretation.
derived productEcotype Assignments
Reusable within-species or community ecotype labels that support environmental validation, microbiome stratification, and downstream hypothesis tests.
data collectionP. aeruginosa
P. aeruginosa genome browser
hypothesisCross-cohort metabolite ecotypes require batch correction
Absolute-intensity metabolite ecotypes are dominated by cohort batch effects unless corrected before clustering.
topicHost Microbiome Translation
Synthesis of IBD phage targeting, formulation design, metabolomics caveats, patient stratification, and intervention cost accounting.
topicMobile Elements, Phage, and Genome Plasticity
Synthesis of phage ecology, prophage signals, defense systems, mobile-element gene flow, and intervention relevance.
Atlas Reuse
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