Variant
Notebook link where you can find all the graphs.
Data created on 17.10.2022 at 19:32:45
Data updated on 17.10.2022 at 19:32:45
Support by Ontologies
The BRENDA Tissue Ontology - BTO and Experimental Factor Ontology - EFO are good sources for variants.
Variants are found only in metabolomics-related repositories, i.e., MTBLS and MW.
| Field Type | Field Name | Values Readability | Unit | Missing | |
|---|---|---|---|---|---|
| MTBLS | dedicated | Variant | free text | none | The field is not provided; or the value is provided as N/A or other similar expressions; or the study "assays" value is "null"; or the organism is not found in NCBI taxonomy. |
| MW | dedicated | GENOTYPE_STRAIN | free text | none | The field is not provided; or the value is provided as N/A or other similar expressions; or decoding the JSON file containing the study details has failed due to syntax error there; or the organism was not found in NCBI taxonomy. |
| Input Examples | Output | |
|---|---|---|
| MTBLS | ["Mus musculus str. SAMP1/YitFc", "BY4741", "Thoroughbred", "EFO:Thalassiosira pseudonana CCMP1335"] | ["c57Bl-6", "c3h-hen", etc.] |
| MW | ["C57BL/6", "Swiss Webster Mice", "C3H/HeN"] | ["c57Bl-6", "c3h-hen", etc.] |
Results
Variants details are available in metabolomics repositories. The most used variant was "C57BL/6J".
Here one can see the number of studies providing the variant and its value.
