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Fixes #200
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sidebar_position: 9 | ||
title: Organism | ||
--- | ||
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# Organism | ||
[Notebook link](https://github.com/NFDI4Chem/repo-scripts/blob/main/notebooks/organism.ipynb) | ||
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## Support by Ontologies | ||
[NCBI Taxonomy](https://www.ncbi.nlm.nih.gov/taxonomy) provides an excelent source for organisms. | ||
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## Data Sanitisation and Missing Values | ||
Organisms are found only in metabolomics related repositories, a.k.a., MTBLS and MW. | ||
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<table> | ||
<tr> | ||
<th></th> | ||
<th>Field Type</th> | ||
<th>Field Name</th> | ||
<th>Values Readability</th> | ||
<th>Unit</th> | ||
<th>Missing</th> | ||
</tr> | ||
<tr> | ||
<td><b>MTBLS</b></td> | ||
<td>dedicated</td> | ||
<td>Organism</td> | ||
<td>ontology-driven</td> | ||
<td>none</td> | ||
<td>The field is not provided; or the value is provided as N/A or other similar expressions; or the study "assays" value is "null".</td> | ||
</tr> | ||
<tr> | ||
<td><b>MW</b></td> | ||
<td>dedicated</td> | ||
<td>Subject Species</td> | ||
<td>free text</td> | ||
<td>none</td> | ||
<td>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.</td> | ||
</tr> | ||
</table> | ||
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