Microbial Discovery Forge

Schema status

discovered

Curation status

curated

Source

berdl-spark-connect://metrics.berdl.kbase.us:443

Philosophy

Capture experimental observations. Link genotypes to measured phenotypes under defined conditions for validation and discovery.

Data sources: KBase phenotype data

Citation & Attribution

Provider: KBase

Scale

7

tables

Schema Browser

Tables (7)

condition_set experiment experiment_x_measurement experimental_context experimental_variable measurement protocol

`experiment`

Column	Type	Description

Sample Queries

Get phenotype data

SELECT *
FROM kbase_phenotype.phenotype
LIMIT 20

Related Collections

📊

Fitness Browser

Gene fitness data from transposon mutant experiments across 40+ bacterial organi...

Projects Using This Collection

Metagenome-Prioritized Phage Cocktails for Crohn's Disease and IBD

Which bacterial pathobionts are **enriched, ubiquitous, and non-protective** in IBD, UC, and Crohn's disease patients — ...

Atlas Pages

data tenant

KBase Tenant and Foundational Genome Data

KBase-provided genome, pangenome, phenotype, and ModelSEED resources that form the core comparative-genomics substrate.

data collection

Fitness Browser Collection

RB-TnSeq fitness evidence used to validate gene function, stress response, essentiality, cofitness, and pathway dependency.

data type

Experimental Phenotypes, Traits, and Assays

Measured organism and gene behavior across laboratory conditions, including mutant fitness, growth phenotypes, utilization traits, and exometabolomic observations.

data collection

Phenotype

Experimental phenotype data (growth conditions and measurements)

opportunity

CF Formulation Score Reuse Test

Find a first downstream consumer for CF formulation scores by testing whether ranked carbon contexts improve strain or community design decisions.

Start Exploring

Access the full Phenotype Collection data through BERDL JupyterHub.

Open JupyterHub