From 5bc21eb70d1c43de1591e254a8feb2aba434001b Mon Sep 17 00:00:00 2001 From: Richard Williams <1234richardwilliams@gmail.com> Date: Thu, 7 Mar 2024 09:23:45 +0000 Subject: [PATCH] Updated prevalence for some blood tests --- shared/clinical-code-sets/tests/hba1c/2/README.md | 9 +++++++++ .../tests/sex-hormone-binding-globulin/1/README.md | 9 +++++++++ shared/clinical-code-sets/tests/testosterone/1/README.md | 9 +++++++++ .../tests/testosterone/1/testosterone.emis.txt | 2 ++ shared/clinical-code-sets/tests/vitamin-d/1/README.md | 9 +++++++++ .../tests/vitamin-d/1/vitamin-d.emis.txt | 4 ++++ 6 files changed, 42 insertions(+) create mode 100644 shared/clinical-code-sets/tests/testosterone/1/testosterone.emis.txt create mode 100644 shared/clinical-code-sets/tests/vitamin-d/1/vitamin-d.emis.txt diff --git a/shared/clinical-code-sets/tests/hba1c/2/README.md b/shared/clinical-code-sets/tests/hba1c/2/README.md index 25841353..0b87289d 100644 --- a/shared/clinical-code-sets/tests/hba1c/2/README.md +++ b/shared/clinical-code-sets/tests/hba1c/2/README.md @@ -8,8 +8,17 @@ A patient's HbA1c as recorded via clinical code and value. This code set only in By examining the prevalence of codes (number of patients with the code in their record) broken down by clinical system, we can attempt to validate the clinical code sets and the reporting of the conditions. Here is a log for this code set. The prevalence range `44.93% - 50.88%` suggests that this code set is likely well defined. +_Update **2024/03/01**: prevalence now `50 - 53%`._ + | Date | Practice system | Population | Patients from ID | Patient from code | | ---------- | --------------- | ---------- | ---------------: | ----------------: | | 2021-05-07 | EMIS | 2605681 | 1170688 (44.93%) | 1170688 (44.93%) | | 2021-05-07 | TPP | 210817 | 98972 (46.95%) | 98972 (46.95%) | | 2021-05-07 | Vision | 334632 | 170245 (50.88%) | 170245 (50.88%) | +| 2024-03-01 | EMIS | 2525130 | 1265760 (50.1%) | 1265887 (50.1%) | +| 2024-03-01 | TPP | 201782 | 101663 (50.4%) | 101673 (50.4%) | +| 2024-03-01 | Vision | 335118 | 177455 (53%) | 177464 (53%) | + +## Audit log + +- Find_missing_codes last run 2024-03-01 diff --git a/shared/clinical-code-sets/tests/sex-hormone-binding-globulin/1/README.md b/shared/clinical-code-sets/tests/sex-hormone-binding-globulin/1/README.md index 9598d744..a843aab5 100644 --- a/shared/clinical-code-sets/tests/sex-hormone-binding-globulin/1/README.md +++ b/shared/clinical-code-sets/tests/sex-hormone-binding-globulin/1/README.md @@ -6,8 +6,17 @@ A patient's SHBG level as recorded via clinical code and value. This code set on By examining the prevalence of codes (number of patients with the code in their record) broken down by clinical system, we can attempt to validate the clinical code sets and the reporting of the conditions. Here is a log for this code set. The prevalence range `2.57% - 3.72%` suggests that this code set is perhaps not well defined. +_Update **2024-03-06**: prevalence now `2.6% - 4.6%`._ + | Date | Practice system | Population | Patients from ID | Patient from code | | ---------- | --------------- | ---------- | ---------------: | ----------------: | | 2021-05-07 | EMIS | 2606497 | 87601 (3.36%) | 87601 (3.36%) | | 2021-05-07 | TPP | 210810 | 5424 (2.57%) | 5424 (2.57%) | | 2021-05-07 | Vision | 334784 | 12465 (3.72%) | 12465 (3.72%) | +| 2024-03-06 | EMIS | 2525894 | 104472 (4.14%) | 104515 (4.14%) | +| 2024-03-06 | TPP | 201753 | 5183 (2.57%) | 5184 (2.57%) | +| 2024-03-06 | Vision | 335117 | 15260 (4.55%) | 15259 (4.55%) | + +## Audit log + +- Find_missing_codes last run 2024-03-06 diff --git a/shared/clinical-code-sets/tests/testosterone/1/README.md b/shared/clinical-code-sets/tests/testosterone/1/README.md index 109addb7..0f6c4b0c 100644 --- a/shared/clinical-code-sets/tests/testosterone/1/README.md +++ b/shared/clinical-code-sets/tests/testosterone/1/README.md @@ -6,8 +6,17 @@ A patient's testosterone level as recorded via clinical code and value. This cod By examining the prevalence of codes (number of patients with the code in their record) broken down by clinical system, we can attempt to validate the clinical code sets and the reporting of the conditions. Here is a log for this code set. The prevalence range `4.91% - 6.24%` suggests that this code set is likely well defined. +_Update **2024-03-06**: prevalence now `6.1% - 7.4%` for EMIS and VISION._ + | Date | Practice system | Population | Patients from ID | Patient from code | | ---------- | --------------- | ---------- | ---------------: | ----------------: | | 2021-05-11 | EMIS | 2606497 | 137971 (5.29%) | 137971 (5.29%) | | 2021-05-11 | TPP | 210810 | 10359 (4.91%) | 10359 (4.91%) | | 2021-05-11 | Vision | 334784 | 20903 (6.24%) | 20903 (6.24%) | +| 2024-03-06 | EMIS | 2525894 | 164555 (6.51%) | 164615 (6.52%) | +| 2024-03-06 | TPP | 201753 | 12294 (6.09%) | 12298 (6.1%) | +| 2024-03-06 | Vision | 335117 | 24684 (7.37%) | 24687 (7.37%) | + +## Audit log + +- Find_missing_codes last run 2024-03-06 diff --git a/shared/clinical-code-sets/tests/testosterone/1/testosterone.emis.txt b/shared/clinical-code-sets/tests/testosterone/1/testosterone.emis.txt new file mode 100644 index 00000000..25d88d6b --- /dev/null +++ b/shared/clinical-code-sets/tests/testosterone/1/testosterone.emis.txt @@ -0,0 +1,2 @@ +^ESCTSE551843 Serum testosterone measurement +^ESCTSE551844 Serum testosterone level \ No newline at end of file diff --git a/shared/clinical-code-sets/tests/vitamin-d/1/README.md b/shared/clinical-code-sets/tests/vitamin-d/1/README.md index 2d880e94..89dccb5f 100644 --- a/shared/clinical-code-sets/tests/vitamin-d/1/README.md +++ b/shared/clinical-code-sets/tests/vitamin-d/1/README.md @@ -6,8 +6,17 @@ A patient's vitamin D level as recorded via clinical code and value. This code s By examining the prevalence of codes (number of patients with the code in their record) broken down by clinical system, we can attempt to validate the clinical code sets and the reporting of the conditions. Here is a log for this code set. The prevalence range `4.30% - 14.10%` suggests that this code set is not well defined and there are TPP codes that are missing. +_Update **2024-03-06**: prevalence now `16% - 18.6%` for EMIS and VISION. TPP much lower at 3.4% suggesting a potential issue._ + | Date | Practice system | Population | Patients from ID | Patient from code | | ---------- | --------------- | ---------- | ---------------: | ----------------: | | 2021-05-11 | EMIS | 2606497 | 282971 (10.86%) | 282971 (10.86%) | | 2021-05-11 | TPP | 210810 | 9056 (4.30%) | 9056 (4.30%) | | 2021-05-11 | Vision | 334784 | 47198 (14.10%) | 47198 (14.10%) | +| 2024-03-06 | EMIS | 2525894 | 404510 (16%) | 404532 (16%) | +| 2024-03-06 | TPP | 201753 | 6837 (3.39%) | 6836 (3.39%) | +| 2024-03-06 | Vision | 335117 | 62329 (18.6%) | 62334 (18.6%) | + +## Audit log + +- Find_missing_codes last run 2024-03-06 diff --git a/shared/clinical-code-sets/tests/vitamin-d/1/vitamin-d.emis.txt b/shared/clinical-code-sets/tests/vitamin-d/1/vitamin-d.emis.txt new file mode 100644 index 00000000..8de0dde6 --- /dev/null +++ b/shared/clinical-code-sets/tests/vitamin-d/1/vitamin-d.emis.txt @@ -0,0 +1,4 @@ +^ESCTSE551875 Serum vitamin D measurement +^ESCTSE551876 Serum vitamin D level +^ESCTVI269420 Vitamin D, 25-hydroxy measurement +^ESCTVI386243 Vitamin D measurement \ No newline at end of file