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--- documentation:vocabulary:dmd [2016/06/30 14:04]
dimshitc1
+++ documentation:vocabulary:dmd [2016/07/14 12:23] (current)
dimshitc1
@@ Line 1: / Line 1: @@
 **Overall Structure of vocabulary is meets criteria described here:**
-	http://www.ohdsi.org/web/wiki/doku.php?id=documentation:vocabulary:drug
+http://www.ohdsi.org/web/wiki/doku.php?id=documentation:vocabulary:drug
-	All the drug concepts Maps to RxNorm Extended or RxNorm concepts
+All the drug concepts have only relationship_id = 'Maps to' relates to RxNorm Extended or RxNorm concepts
+RxNorm and RxNorm extended concept then have all usual relationships and drug_strenght tables (between Ingredient and Drug, Brand Name and Branded Drug and other)
-__1. Ingredients__
+**1. Ingredients**\\
  all Ingredients and VTMs Maps to RxNorm or RxNorm Extension Ingredients
 if there is VTM containing several ingredients, we map them to each ingredient
- 18035211000001104	Co-dydramol	->	1125315	Acetaminophen	(RxNorm)
+	18035211000001104 Co-dydramol -> 1125315 Acetaminophen (RxNorm)
-18035211000001104	Co-dydramol ->  1189596	dihydrocodeine	(RxNorm)
+	18035211000001104 Co-dydramol -> 1189596 dihydrocodeine (RxNorm)
 --example with RxNorm Extension when it will be build
@@ Line 13: / Line 16: @@
 some ingredients don't have exact mapping because RxNorm uses more precise version, like
-10157211000001104 Melissa extract 44507591 Melilotus indicus whole extract 1
+	10157211000001104 Melissa extract -> 44507591 Melilotus indicus whole extract 1
-10157211000001104 Melissa extract 42904087 Melilotus officinalis top extract 2
+	10157211000001104 Melissa extract -> 42904087 Melilotus officinalis top extract 2
-10157211000001104 Melissa extract 42899425 Melissa officinalis extract 3
+	10157211000001104 Melissa extract -> 42899425 Melissa officinalis extract 3
-10157211000001104 Melissa extract 46234336 Melissa officinalis flowering top extract 4
+	10157211000001104 Melissa extract -> 46234336 Melissa officinalis flowering top extract 4
 then anlysing drugs containing these ingredients we find out wich ingredient RxNorm uses more often
 --can give an example only after script run
-__2. Concept Classes__
+**2. Concept Classes**\\
 Original dm+d classes (VTM, AMP, AMPP, etc.) are placed in column source_concept_class_id.
 Concept_class_id is standardized and defined by the rules described here:
 http://www.ohdsi.org/web/wiki/doku.php?id=documentation:vocabulary:drug
-__3. Brand Names__
+**3. Brand Names**\\
-Dm+d doesn't provide Brand Name as a separate concept, so we parsed drug descriptions in order to get Brand names
+Dm+d doesn't provide Brand Name as a separate concept, so we parsed drug descriptions in order to get Brand names.
-for example  "Vastarel MR 35mg tablets (Imported (France))" ->HAS Brand_name (Has ing)-> "OMOP246916 Vastarel MR" (RxE) OR
+We use here not a clear Brand Name but any Name differs from Dose Form and Ingredient but used as a part of Drug name by Supplier, for example
+relationship_id = 'RxNorm has ing'
-Stromectol 3mg tablets (Imported (France)) 20 tablet -> RxNorm ing of-> 19081723 Stromectol (RxNorm)
+	Boots Cold and Flu Relief with Ibuprofen tablets (The Boots Company Plc) -> "Boots Cold and Flu Relief with Ibuprofen",
+	Aquasol A Parenteral 100,000units/2ml solution for injection vials (Imported (United States)) -> Aquasol A Parenteral
+	Vastarel MR 35mg tablets (Imported (France)) -> "Vastarel MR"
+	Stromectol 3mg tablets (Imported (France)) 20 tablet ->  RxNorm ing of-> Stromectol
 -- add example of RxNorm extension Brand Name concept when it'll be done
-__4. Drug Packs:__
+**4. Drug Packs:**\\
 built Drug Packs with RxNorm like relationships
-__5. Devices__
+**5. Devices**\\
 Dm+d vocabulary contains devices such as bandages, syringes, food supplements, etc.
 Please see http://www.ohdsi.org/web/wiki/doku.php?id=documentation:vocabulary:domains for Domain rules definition.
 Devices don't have RxNorm Extension equivalents and relationships, they present in OMOP vocabulary as standard concepts
-__6. Supplier__
+**6. Supplier**\\
 Supplier info added, made relationships between Marketed Drug Product and Supplier: relationships 'Has supplier' и 'Supplier of' as discribed
 and between Marketed Drug Product and related Drug-concept relationship_id in ('Has marketed form', 'Marketed form of')
+**7. Drug_strength issues**\\
+Most part of the drugs are parsed into ds_stage and then into drug_strenght tables but some of them can't be, some examples of these unparsable drugs
+No dosage given:
+	Generic Glucosamine QCV tablets
+	Generic ARTISS solution for sealant 2ml pre-filled syringes
+Concentration is given not for all ingredients:
+	Dithranol 0.4% in Zinc and Salicylic acid paste,
+	Apple mistletoe 1mg/1ml with Copper carbonate solution for injection ampoules.
+	Concentration given is useless
+	Generic Resolve effervescent granules 8.09g sachets
+actually contains combination of
+Paracetamol, Ascorbic acid, Sodium bicarbonate, Potassium bicarbonate, Citric acid, Sodium carbonate,
+so this 8.09g is totally useless in purpose of drug_strenght building
+**8. Percents recalculation**
+mostly is obvious, but  \\
+sometimes they don't give exact quantitative factor info so define it by the Drug form, for example
+"Avoca 95% silver nitrate applicators (Bray Group Ltd) 100 applicator 10 x 10 applicators"
+and this is "95% w/w (weight / weight) silver nitrate pencil " , in other words 0,95 mg / mg.

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