documentation:athena:import_snomed
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documentation:athena:import_snomed [2015/04/01 10:50] gleb_malikov |
documentation:athena:import_snomed [2015/04/02 04:30] (current) cgreich |
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| + | I would build the logic slightly differently: | ||
| + | |||
| + | 1. Concepts. | ||
| + | - We have one authoratitative source: SNOMED international in combination with SNOMED UK. Other components might follow later (DM+D, other country-specific versions). | ||
| + | - We get a stream of concepts from them: | ||
| + | - Attributes of existing concepts are overwritten by the new concepts | ||
| + | - New concepts are added | ||
| + | - Missing concepts are deprecated | ||
| + | - Explicitely deprecated (inactivated) concepts are deprecated | ||
| + | - We do domain assignments for all of them. This is done by building the entire hierarchical tree and defining "peaks", of which all children inherit their domain. | ||
| + | - We define standard_concepts depending on their deprecation status and domain | ||
| + | - We get a stream of concept-to-concept relationships | ||
| + | - New ones get added | ||
| + | - Missing ones - if the concepts are deprecated, we leave them alone, if the concepts are active, we deprecate them | ||
| + | - Explicitely deprecated ones are deprecated | ||
| + | - We get a stream of update (inactive to active) relationships (only one per deprecated concept must exist) | ||
| + | - New ones get added | ||
| + | - Existing identical ones get left alone | ||
| + | - Existing update relationship to a different concept get deprecated and the new one added | ||
| + | |||
| + | Makes sense? | ||
| + | |||
| + | I am not sure we need UMLS for them. UMLS is really only a re-formating of SNOMED. There isn't much going on. Unless you found something in http://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/SNOMEDCT_US. Take a look. | ||
| ====== Import data from SNOMED vocabulary. ====== | ====== Import data from SNOMED vocabulary. ====== | ||
| Line 39: | Line 62: | ||
| **M** - new records, that are just added to new version of SNOMED. We need to validate them, using the source description. | **M** - new records, that are just added to new version of SNOMED. We need to validate them, using the source description. | ||
| + | Also, we must have an ability to see each of this subsets as the table or export it to file by the user request. | ||
| ==== Validation ==== | ==== Validation ==== | ||
documentation/athena/import_snomed.1427885432.txt.gz ยท Last modified: 2015/04/01 10:50 by gleb_malikov
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