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opensafely / school-age-children-and-covid

Repo for the project that examines the association between school age children in the house and covid-19 outcomes
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Codelist: worms #13

Closed hjforbes closed 4 years ago

hjforbes commented 4 years ago

Worms codelist for snotty noses study, to check we are correctly identifying households with children.

Draft Read code list here: @laurietomlinson can you review this? I searched for worm and helminth. If you can think of any other search terms please let me know. worms_v1.xlsx

Should we also look for treatment for worms (i.e. MEBENDAZOLE)?

laurietomlinson commented 4 years ago

worms_v1_LT.xlsx Thanks for this! I think we should be quite specific - 'helminths' might cover any of them. You can buy mebendazole over the counter so hopefully if someone has presented to the GP they will get a code and be quicker than looking at prescriptions. Are you ok to crossmap these or do we need to ask Caroline or Alex?

hjforbes commented 4 years ago

Thanks @laurietomlinson

Updated READ code list here: READ_worms_v2.xlsx

I'm struggling to find the right SNOMED chapter! Can you help?
https://termbrowser.nhs.uk/?perspective=full&conceptId1=27601005&edition=uk-edition&release=v20200610&server=https://termbrowser.nhs.uk/sct-browser-api/snomed&langRefset=999001261000000100,999000691000001104

I think I can do the mapping now - @CarolineMorton can you send me the link to the instructions?

Thanks!

laurietomlinson commented 4 years ago

Sorry @hjforbes I haven't done any mapping so am no use. Hope Caroline can helpor could Anna?

CarolineMorton commented 4 years ago

You need to send the lists to Christ Bates. I normally just send him a link to this issue on Slack or you might want to email him.

hjforbes commented 4 years ago

Great - thanks @CarolineMorton

Also I'm struggling to identify the right SNOMED codes for worms, from the browsers. The codes don't say worms! Would you mind looking which chapter we need?

Thanks! Harriet

CarolineMorton commented 4 years ago

I would search for helminth

hjforbes commented 4 years ago

Thanks.

So final lists:

READ v2: READ_worms_v2.xlsx

SNOMED codelist here: snomed-worms.xlsx

CarolineMorton commented 4 years ago

Great - you need to email these forms to Chris Bates at TPP to get them mapped. Do you have his email? If not, slack msg me and i will send across. The lists get emailed back.

hjforbes commented 4 years ago

Just emailed him a link to this git issue 👍

CarolineMorton commented 4 years ago

I think he doesn't have access to the repo anymore so best to email lists across. Apologies this has changed from last time.

hjforbes commented 4 years ago

Mapped codelists here, with decisions from @laurietomlinson Copy of CTV3_Worms_Raw_LT.xlsx

Final codelist here:
Copy of CTV3_Worms_Raw_FINAL.xlsx