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Repository for discussion of OpenSAFELY codelists
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*CLINICAL CONDITION* Organ transplant recipient (solid organ) #9

Open CarolineMorton opened 4 years ago

CarolineMorton commented 4 years ago

LSHTM definition

Any history ever of any solid organ transplant (unless as donor)

Need codelist from Grint paper. Emailed Helen M re this

CarolineMorton commented 4 years ago

COde list from LSHTM organ_tx_simple_July18.xlsx

CarolineMorton commented 4 years ago

FINAL

DEFINITION: Patients who have a organ transplant code ever on their records

Snomed codes here - would be good to have a quick call about the browser to make sure I've got the hang of it... Snomed transplant1.xlsx

REVIEWED CTV3 codelist: OrganTransplant_CTV3_Reviewed.xlsx

POTENTIAL BIASES:

CLINICAL SIGN OFF & DATE:

EPIDEMIOLOGY SIGN OFF & DATE: Alex Walker (@alexwalkercebm) 10/4/2020 18:01

SHARED WITH WIDER TEAM: Yes/No

FINAL SIGN OFF DATE (and apply label)

CarolineMorton commented 4 years ago

Discussion over email with @ianjdouglas - summarised here:

Reviewing transplant codes and have been including bone marrow/stem cell, given risk of immunosuppression.

I think that what we want is solid-organ transplant as bone marrow transplant / stem cell will be included within the immunosuppression covariate and we don't want them in there twice. @alexwalkercebm has been coordinating with @hmcd about this in more detail here (#60). Can I just confirm that this is what we have been thinking?

hmcd commented 4 years ago

Hello, yes, bone marrow/stem cell are included as a separate group.

On Sun, 5 Apr 2020 at 10:52, CarolineMorton notifications@github.com wrote:

Discussion over email with @ianjdouglas https://github.com/ianjdouglas

  • summarised here:

Reviewing transplant codes and have been including bone marrow/stem cell, given risk of immunosuppression.

I think that what we want is solid-organ transplant as bone marrow transplant / stem cell will be included within the immunosuppression covariate and we don't want them in there twice. @alexwalkercebm https://github.com/alexwalkercebm has been coordinating with @hmcd https://github.com/hmcd about this in more detail here (#60 https://github.com/ebmdatalab/tpp-sql-notebook/issues/60). Can I just confirm that this is what we have been thinking?

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/ebmdatalab/tpp-sql-notebook/issues/31#issuecomment-609389777, or unsubscribe https://github.com/notifications/unsubscribe-auth/AI5K5A5UHY357EJFJLX2QYLRLBIGFANCNFSM4LXOBCKQ .

CarolineMorton commented 4 years ago

FINAL

DEFINITION: Patients who have a organ transplant code ever on their records

CODE LISTS: FINAL CODE LIST: - OrganTransplant-final1.xlsx

STEP 1 Code list available in Read V2 from LSHTM: organ_tx_simple_July18.xlsx

STEP 2 Add QOF by @ianjdouglas Codes from QoF - Caroline, these include bone marrow, is that ok? Would be good for you to have a quick sense check to make sure this is as you'd hoped. transplant qof.xlsx Following agreement to exclude bone marrow/stem cell, have deleted those terms and added a comment for terms I think are too vague. Have also excluded terms for corneal, bone, fetus, skin, bone and blood vessels. solid organ transplant qof.xlsx

STEP 3: by @ianjdouglas Snomed codes here - would be good to have a quick call about the browser to make sure I've got the hang of it... Snomed transplant1.xlsx

STEP 4: REVIEWED_ CTV3 codelist. Reviewed by @alexwalkercebm OrganTransplant_CTV3_Reviewed.xlsx

POTENTIAL BIASES: None

CLINICAL SIGN OFF & DATE: Caroline Morton @CarolineMorton 10-4-2020 18:03

EPIDEMIOLOGY SIGN OFF & DATE: Alex Walker (@alexwalkercebm) 10/4/2020 18:01

SHARED WITH WIDER TEAM: Yes

FINAL SIGN OFF DATE (and apply label) 13-4-2020 12:23