cgchute
commented
5 years ago I am adding Richard Zhu @richard1933 to this discussion. He oversaw our HPO conversions for clinical profiles.
Closed pnrobinson closed 4 years ago
cgchute
commented
5 years ago I am adding Richard Zhu @richard1933 to this discussion. He oversaw our HPO conversions for clinical profiles.
kingmanzhang
commented
4 years ago Some initial result from OHSU. Top LOINC not yet annotated:
| loinc_code | marked_uninterpretable | lab_count |
|---|---|---|
| 26453-1 | N | 522509 |
| 28542-9 | N | 521789 |
| 8251-1 | N | 519469 |
| 30385-9 | N | 515670 |
| 30392-5 | N | 440305 |
| 58413-6 | N | 440281 |
| 1783-0 | N | 325244 |
| 8251-1 | N | 280741 |
| 8251-1 | N | 273425 |
| 38518-7 | N | 204944 |
| 51584-1 | N | 204787 |
| 10331-7 | N | 85944 |
| 883-9 | N | 85832 |
| 1743-4 | N | 68978 |
| 43396-1 | N | 56723 |
| 11277-1 | N | 56655 |
| 5767-9 | N | 53495 |
| 55368-5 | N | 49876 |
| 2546-0 | N | 49166 |
| 41284-1 | N | 48584 |
| 25148-8 | N | 48494 |
| 33393-0 | N | 48324 |
| 5822-2 | N | 48305 |
| 8251-1 | N | 48252 |
| 46137-6 | N | 48237 |
| 46138-4 | N | 48236 |
| 38995-7 | N | 48179 |
| 8251-1 | N | 48129 |
| 8251-1 | N | 47768 |
| 33905-1 | N | 46685 |
| 8251-1 | N | 46138 |
| 81178-6 | N | 45331 |
| 34574-4 | N | 44362 |
| 5799-2 | N | 42631 |
| 6777-7 | N | 38395 |
| 38892-6 | N | 31702 |
| 50220-3 | Y | 27957 |
| 50220-3 | Y | 27820 |
| 49541-6 | N | 27054 |
| 20507-0 | N | 25993 |
| 32721-3 | N | 24607 |
| 56888-1 | N | 24168 |
| 11039-5 | N | 23759 |
| 743-5 | N | 23642 |
| 732-8 | N | 23641 |
| 38518-7 | N | 23639 |
| 51584-1 | N | 23610 |
| 30424-6 | N | 23006 |
| 3040-3 | N | 21659 |
| 61151-7 | N | 20460 |
| 1744-2 | N | 19717 |
| 81178-6 | N | 18342 |
| 11253-2 | N | 18270 |
| 2026-3 | N | 18167 |
| 8251-1 | N | 18000 |
| 46425-5 | N | 18000 |
| 8251-1 | N | 18000 |
| 11580-8 | N | 17975 |
| 16128-1 | N | 17921 |
| 50984-4 | N | 17043 |
| 5195-3 | N | 16603 |
| 32684-3 | N | 15512 |
| 19145-2 | N | 14858 |
| 34652-8 | N | 14819 |
| 8251-1 | N | 14369 |
| 5195-3 | N | 14208 |
| 50989-3 | N | 13816 |
| 43403-5 | Y | 12636 |
| 43404-3 | Y | 12631 |
| 43304-5 | Y | 12542 |
| 43305-2 | Y | 12527 |
| 60026-2 | N | 11819 |
| 19295-5 | N | 11165 |
| 19642-8 | N | 11165 |
| 50560-2 | N | 10934 |
| 19244-3 | N | 10795 |
| 9830-1 | N | 10452 |
kingmanzhang
commented
4 years ago transferred to loinc2hpoAnnotation. Consider this as done.
Can we make a list of LOINC terms that were not mapped at one real-life CTSA, and look at the most common ones to identify any potential systematic reasons for failure? That is, if we are expecting the wrong codes or something like that, then the failure might not be because of incomplete curation (we know about that) but because of a logic problem in our code that we are not aware of. This analysis will try to figure that out by looking at the top 250 most common failures. If possible, it would be good to share this in a de-identified way with the entire team.