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PROTECT-CHILD Pediatric Transplant Data Implementation Guide
0.1.0-ci-build -

PROTECT-CHILD Pediatric Transplant Data Implementation Guide
0.1.0-ci-build - ci-build

PROTECT-CHILD Pediatric Transplant Data Implementation Guide, published by Protect Child. This guide is not an authorized publication; it is the continuous build for version 0.1.0-ci-build built by the FHIR (HL7® FHIR® Standard) CI Build. This version is based on the current content of https://github.com/hl7-eu/protect-child/ and changes regularly. See the Directory of published versions

DM → FHIR → OMOP Crosswalk

DM → FHIR → OMOP Crosswalk

This page presents the full three-way crosswalk for the PROTECT-CHILD data model: each data-model variable, the FHIR element it maps to in this IG, and the OMOP CDM table, field and standardized concept it maps to. It consolidates the per-entity FHIR model maps and the OMOP mapping into a single reference.

Only variables with a completed OMOP mapping are shown. Every OMOP concept is listed on its own row; a variable that maps to several OMOP fields (e.g. a ..._concept_id plus a unit_concept_id or value_as_concept_id), or whose field accepts several coded values (a value set), spans as many rows as it has concepts, with the DM field and FHIR element repeated. Concept IDs are OMOP concept_id values — look them up by pasting the ID into the search box of the OHDSI Athena vocabulary browser. IDs ≥ 2000000000 (vocabulary PROTECT-CHILD) are custom concepts. A — marks a structural or foreign-key field with no concept code.

Patient

DM field FHIR element OMOP table · field OMOP concept Vocabulary
patient_id Patient.identifier.value PERSON · person_id — —
gender Patient.gender PERSON · gender_concept_id 8532 — FEMALE Gender
      8507 — MALE Gender
birth_year — (FHIR IG derives age via age_years/age_months components, not birthDate) PERSON · year_of_birth — —
birth_month — (FHIR IG derives age via age_years/age_months components, not birthDate) PERSON · month_of_birth — —
max_pra Observation.component[max_pra].valueInteger MEASUREMENT · measurement_concept_id 21493706 — Calculated panel reactive antibody - Serum LOINC
    MEASUREMENT · unit_concept_id 8554 — percent UCUM
last_pra Observation.component[last_pra].valueInteger MEASUREMENT · measurement_concept_id 21493706 — Calculated panel reactive antibody - Serum LOINC
    MEASUREMENT · unit_concept_id 8554 — percent UCUM
date_histological_diag Observation.component[date_histological_diag].valueDateTime OBSERVATION · observation_concept_id 2000000042 — Primary diagnosis confirmed by histology PROTECT-CHILD
    OBSERVATION · observation_date — —
date_diag_primary_disease Condition.onsetDateTime CONDITION_OCCURRENCE · condition_start_date — —
diag_primary_disease Condition.code CONDITION_OCCURRENCE · condition_concept_id — —
    CONDITION_OCCURRENCE · condition_status_concept_id 32902 — Primary diagnosis Condition Status
center_no Patient.managingOrganization PERSON · care_site_id — —

Donor

DM field FHIR element OMOP table · field OMOP concept Vocabulary
donor_id Patient.identifier.value PERSON · person_id — —
age_years Observation.component[age_years].valueQuantity PERSON · year_of_birth — —
age_months Observation.component[age_months].valueQuantity PERSON · month_of_birth — —
type Patient.deceasedBoolean OBSERVATION · observation_concept_id 2000000016 — Type of donor PROTECT-CHILD
    OBSERVATION · value_as_concept_id 45885033 — Deceased LOINC
      45885109 — Living LOINC
liver_type Observation.valueCodeableConcept MEASUREMENT · measurement_concept_id 3044734 — Graft portion Liver LOINC
    MEASUREMENT · value_as_concept_id 4114660 — Entire SNOMED
      4116993 — Partial SNOMED

Visit

DM field FHIR element OMOP table · field OMOP concept Vocabulary
visit_id Encounter.identifier.value VISIT_OCCURRENCE · visit_occurrence_id — —
patient_id Encounter.subject VISIT_OCCURRENCE · person_id — —
date Encounter.period.start VISIT_OCCURRENCE · visit_start_date — —
visit_type Encounter.type VISIT_OCCURRENCE · visit_concept_id 9202 — Outpatient Visit Visit
    OBSERVATION · observation_concept_id 2000000002 — Pre-transplant visit PROTECT-CHILD
      4081745 — Follow-up 1 month SNOMED
      44789369 — Follow-up 3 months SNOMED
      4103967 — Follow-up 6 months SNOMED
      4081746 — Follow-up 1 year SNOMED
      44789049 — Follow-up 2 years SNOMED
      2000000003 — Clinical event visit PROTECT-CHILD
      2000000004 — Termination visit PROTECT-CHILD

Transplant

DM field FHIR element OMOP table · field OMOP concept Vocabulary
transplant_id Procedure.identifier.value PROCEDURE_OCCURRENCE · procedure_occurrence_id — —
visit_id Procedure.encounter VISIT_OCCURRENCE · visit_occurrence_id — —
d_r_weight_ratio Observation.component[d_r_weight_ratio].valueQuantity MEASUREMENT · measurement_concept_id 2000000009 — Graft-to-recipient weight ratio PROTECT-CHILD
vessel_mismatch_d_r Observation.component[vessel_mismatch_d_r].valueBoolean OBSERVATION · observation_concept_id 2000000010 — Donor–recipient vessel mismatch PROTECT-CHILD
cold_ischemia_time Observation.component[cold_ischemia_time].valueQuantity MEASUREMENT · measurement_concept_id 3045879 — Cold ischemic time {Organ} LOINC
    MEASUREMENT · unit_concept_id 8550 — minute UCUM
warm_ischemia_time Observation.component[warm_ischemia_time].valueQuantity MEASUREMENT · measurement_concept_id 3043350 — Warm ischemic time {Organ} LOINC
    MEASUREMENT · unit_concept_id 8550 — minute UCUM
tx_type Procedure.code PROCEDURE_OCCURRENCE · procedure_concept_id 4076862 — Transplantation of liver SNOMED
      4322471 — Transplant of kidney SNOMED
date_tx Procedure.performedDateTime PROCEDURE_OCCURRENCE · procedure_date — —
vascular_anomalies Observation.component[vascular_anomalies].valueString OBSERVATION · observation_concept_id 37204873 — Vascular malformation SNOMED
type_surgical_biliary_anastomosis Procedure.code PROCEDURE_OCCURRENCE · procedure_concept_id 2000000017 — Duct-to-Duct Anastomosis PROTECT-CHILD
      37151270 — Choledochocholedochostomy SNOMED
      2000000018 — Hepaticocholedochostomy PROTECT-CHILD
      2000000019 — Bilioenteric Anastomosis PROTECT-CHILD
      4200500 — Roux-en-Y hepaticojejunostomy SNOMED
intraoperative_complications Condition.code CONDITION_OCCURRENCE · condition_concept_id 4308716 — Intraoperative hemorrhage SNOMED
      4132549 — Injury of bile duct SNOMED
      4308537 — Injury to blood vessel during surgery SNOMED
      2000000031 — Liver ischemia PROTECT-CHILD
      4087151 — Injury of ureter SNOMED
      442553 — Injury of urinary bladder SNOMED
      42536547 — Ischemia of kidney SNOMED
intraoperative_complications_other Condition.note CONDITION_OCCURRENCE · condition_concept_id 42538061 — Intraoperative complication SNOMED
type_ureteral_graft_anastomosis Procedure.code PROCEDURE_OCCURRENCE · procedure_concept_id 2109661 — Ureteroneocystostomy; anastomosis of single ureter to bladder CPT4
      4198228 — Formation of cutaneous ureterostomy SNOMED
      4264011 — Ureterostomy SNOMED
      4044045 — Suprapubic cystostomy SNOMED
other_type_ureteral_graft_anastomosis Procedure.code.text PROCEDURE_OCCURRENCE · procedure_concept_id 4267594 — Anastomosis of ureter SNOMED

Immunological Data

DM field FHIR element OMOP table · field OMOP concept Vocabulary
visit_id Observation.encounter VISIT_OCCURRENCE · visit_occurrence_id — —
blood_group Observation.component[blood_group].valueCodeableConcept MEASUREMENT · measurement_concept_id 3002529 — ABO group [Type] in Blood LOINC
    MEASUREMENT · value_as_concept_id 36308333 — Group A LOINC
      36309587 — Group B LOINC
      36311267 — Group AB LOINC
      36309715 — Group O LOINC
rh_factor Observation.component[rh_factor].valueCodeableConcept MEASUREMENT · measurement_concept_id 3003310 — Rh [Type] in Blood LOINC
    MEASUREMENT · value_as_concept_id 45884084 — Positive LOINC
      45878583 — Negative LOINC
hla_a_1 Observation.component[hla_a_1].valueString MEASUREMENT · measurement_concept_id 3024471 — HLA-A [Type] LOINC
hla_a_2 Observation.component[hla_a_2].valueString MEASUREMENT · measurement_concept_id 3024471 — HLA-A [Type] LOINC
hla_b_1 Observation.component[hla_b_1].valueString MEASUREMENT · measurement_concept_id 3025311 — HLA-B [Type] LOINC
hla_b_2 Observation.component[hla_b_2].valueString MEASUREMENT · measurement_concept_id 3025311 — HLA-B [Type] LOINC
hla_c_1 Observation.component[hla_c_1].valueString MEASUREMENT · measurement_concept_id 3026777 — HLA-C [Type] LOINC
hla_c_2 Observation.component[hla_c_2].valueString MEASUREMENT · measurement_concept_id 3026777 — HLA-C [Type] LOINC
hla_drb1_1 Observation.component[hla_drb1_1].valueString MEASUREMENT · measurement_concept_id 40760417 — HLA-DRB1 [Type] LOINC
hla_drb1_2 Observation.component[hla_drb1_2].valueString MEASUREMENT · measurement_concept_id 40760417 — HLA-DRB1 [Type] LOINC
hla_dp_1 Observation.component[hla_dp_1].valueString MEASUREMENT · measurement_concept_id 3013862 — HLA-DP [Type] LOINC
hla_dp_2 Observation.component[hla_dp_2].valueString MEASUREMENT · measurement_concept_id 3013862 — HLA-DP [Type] LOINC
hla_dqb1_1 Observation.component[hla_dqb1_1].valueString MEASUREMENT · measurement_concept_id 3038881 — HLA-DQB1 [Type] LOINC
hla_dqb1_2 Observation.component[hla_dqb1_2].valueString MEASUREMENT · measurement_concept_id 3038881 — HLA-DQB1 [Type] LOINC
mfi Observation.component[mfi].valueCodeableConcept MEASUREMENT · measurement_concept_id 2000000051 — MFI category: Weak Reaction (500-2k) PROTECT-CHILD
      2000000052 — MFI category: Moderate Reaction (2k-4k) PROTECT-CHILD
      2000000053 — MFI category: Strong Reaction (>4k) PROTECT-CHILD
banff_category Observation.component[banff_category].valueCodeableConcept MEASUREMENT · measurement_concept_id 2000000044 — Banff Classification of Allograft Pathology: Category 1 PROTECT-CHILD
      2000000045 — Banff Classification of Allograft Pathology: Category 2 PROTECT-CHILD
      2000000046 — Banff Classification of Allograft Pathology: Category 3 PROTECT-CHILD
      2000000047 — Banff Classification of Allograft Pathology: Category 4 PROTECT-CHILD
      2000000048 — Banff Classification of Allograft Pathology: Category 5 PROTECT-CHILD
ihc_if_c4d Observation.component[ihc_if_c4d].valueBoolean MEASUREMENT · measurement_concept_id 4015468 — Complement C4d measurement SNOMED
    MEASUREMENT · value_as_concept_id 9189 — Negative SNOMED
      9191 — Positive SNOMED
anca Observation.component[anca].valueBoolean MEASUREMENT · measurement_concept_id 3009628 — Neutrophil cytoplasmic Ab [Presence] in Serum LOINC
    MEASUREMENT · value_as_concept_id 45884084 — Positive LOINC
      45878583 — Negative LOINC
anti_hla_antibodies Observation.component[anti_hla_antibodies].valueBoolean MEASUREMENT · measurement_concept_id 3035516 — HLA Ab [Presence] LOINC
    MEASUREMENT · value_as_concept_id 45884084 — Positive LOINC
      45878583 — Negative LOINC

Vital Sign

DM field FHIR element OMOP table · field OMOP concept Vocabulary
visit_id Observation.encounter MEASUREMENT · visit_occurrence_id — —
date Observation.effectiveDateTime MEASUREMENT · measurement_date — —
systolic_blood_pressure Observation.component[systolic_bp].valueQuantity MEASUREMENT · measurement_concept_id 3004249 — Systolic blood pressure LOINC
    MEASUREMENT · unit_concept_id 8876 — millimeter mercury column UCUM
diastolic_blood_pressure Observation.component[diastolic_bp].valueQuantity MEASUREMENT · measurement_concept_id 3012888 — Diastolic blood pressure LOINC
    MEASUREMENT · unit_concept_id 8876 — millimeter mercury column UCUM
heart_rate Observation.component[heart_rate].valueQuantity MEASUREMENT · measurement_concept_id 3027018 — Heart rate LOINC
    MEASUREMENT · unit_concept_id 8483 — counts per minute UCUM
oxygen_saturation Observation.component[oxygen_saturation].valueQuantity MEASUREMENT · measurement_concept_id 4196147 — Peripheral oxygen saturation SNOMED
    MEASUREMENT · unit_concept_id 8554 — percent UCUM
temperature Observation.component[temperature].valueQuantity MEASUREMENT · measurement_concept_id 3020891 — Body temperature LOINC
    MEASUREMENT · unit_concept_id 586323 — degree Celsius UCUM
bmi Observation.component[bmi].valueQuantity MEASUREMENT · measurement_concept_id 4245997 — Body mass index SNOMED
sbp_percentile Observation.component[sbp_percentile].valueInteger MEASUREMENT · measurement_concept_id 44806887 — Systolic blood pressure centile SNOMED
dbp_percentile Observation.component[dbp_percentile].valueInteger MEASUREMENT · measurement_concept_id 44806886 — Diastolic blood pressure centile SNOMED
mean_sbp_24 Observation.component[mean_sbp_24].valueQuantity MEASUREMENT · measurement_concept_id 36032120 — Systolic blood pressure mean LOINC
mean_dbp_24 Observation.component[mean_dbp_24].valueQuantity MEASUREMENT · measurement_concept_id 36031214 — Diastolic blood pressure mean LOINC
mean_sbp_day Observation.component[mean_sbp_day].valueQuantity MEASUREMENT · measurement_concept_id 4194471 — Average day interval systolic blood pressure SNOMED
mean_dbp_day Observation.component[mean_dbp_day].valueQuantity MEASUREMENT · measurement_concept_id 4199654 — Average day interval diastolic blood pressure SNOMED
mean_sbp_night Observation.component[mean_sbp_night].valueQuantity MEASUREMENT · measurement_concept_id 4199649 — Average night interval systolic blood pressure SNOMED
mean_dbp_night Observation.component[mean_dbp_night].valueQuantity MEASUREMENT · measurement_concept_id 4194578 — Average night interval diastolic blood pressure SNOMED
sbp_load Observation.component[sbp_load].valueQuantity MEASUREMENT · measurement_concept_id 2000000038 — Systolic blood pressure load PROTECT-CHILD
    MEASUREMENT · unit_concept_id 8554 — percent UCUM
dbp_load Observation.component[dbp_load].valueQuantity MEASUREMENT · measurement_concept_id 2000000039 — Diastolic blood pressure load PROTECT-CHILD
    MEASUREMENT · unit_concept_id 8554 — percent UCUM
sbp_dip Observation.component[sbp_dip].valueQuantity MEASUREMENT · measurement_concept_id 2000000040 — Systolic blood pressure Dip PROTECT-CHILD
    MEASUREMENT · unit_concept_id 8554 — percent UCUM
dbp_dip Observation.component[dbp_dip].valueQuantity MEASUREMENT · measurement_concept_id 2000000041 — Diastolic blood pressure Dip PROTECT-CHILD
    MEASUREMENT · unit_concept_id 8554 — percent UCUM

BioSample

DM field FHIR element OMOP table · field OMOP concept Vocabulary
bio_sample_id Specimen.identifier.value SPECIMEN · specimen_id — —
collection_date Specimen.collection.collectedDateTime SPECIMEN · specimen_concept_id 4048506 — Specimen SNOMED
    SPECIMEN · specimen_date — —

Pre-Medication

DM field FHIR element OMOP table · field OMOP concept Vocabulary
visit_id MedicationStatement.context DRUG_EXPOSURE · visit_occurrence_id — —
    PROCEDURE_OCCURRENCE · visit_occurrence_id — —
antihypertensive_treatment MedicationStatement.medicationCodeableConcept DRUG_EXPOSURE · drug_concept_id 1332418 — amlodipine RxNorm
      1318853 — nifedipine RxNorm
      1340128 — captopril RxNorm
      1314002 — atenolol RxNorm
      1346823 — carvedilol RxNorm
      1353766 — propranolol RxNorm
      1309068 — minoxidil RxNorm
      1398937 — clonidine RxNorm
      1363053 — doxazosin RxNorm
    PROCEDURE_OCCURRENCE · procedure_concept_id 4198565 — Administration of prophylactic angiotensin converting enzyme inhibitor SNOMED
      4207461 — Beta adrenergic receptor blocking agent therapy SNOMED
rituximab MedicationStatement.status DRUG_EXPOSURE · drug_concept_id 1314273 — rituximab RxNorm
date_last_rituximab MedicationStatement.effectiveDateTime DRUG_EXPOSURE · drug_exposure_end_date — —
antiviral_prophylaxis MedicationStatement.status PROCEDURE_OCCURRENCE · procedure_concept_id 619308 — Administration of prophylactic antiviral SNOMED

Clinical Variable

DM field FHIR element OMOP table · field OMOP concept Vocabulary
weight Observation.component[weight].valueQuantity MEASUREMENT · measurement_concept_id 3025315 — Body weight LOINC
    MEASUREMENT · unit_concept_id 9529 — kilogram UCUM
height Observation.component[height].valueQuantity MEASUREMENT · measurement_concept_id 3036277 — Body height LOINC
    MEASUREMENT · unit_concept_id 8582 — centimeter UCUM
concomitant_disease Condition.code CONDITION_OCCURRENCE · condition_concept_id 200219 — Abdominal pain SNOMED
      45757063 — Allergic Bronchopulmonary Mycosis SNOMED
      200528 — Ascites SNOMED
      195856 — Cholangitis SNOMED
      434621 — Autoimmune disease SNOMED
      192963 — Disorder of pancreas SNOMED
      201820 — Diabetes mellitus SNOMED
      196523 — Diarrhea SNOMED
      433595 — Edema SNOMED
      4096682 — Bleeding from nose SNOMED
      437663 — Fever SNOMED
      40480518 — Hyperplasia of gingiva SNOMED
      4150016 — Malabsorption of glucose SNOMED
      378253 — Headache SNOMED
      4223098 — Hepatic artery thrombosis SNOMED
      4029488 — Hepatic encephalopathy SNOMED
      4245975 — Hepatic failure SNOMED
      197676 — Large liver SNOMED
      4159144 — Hepatopulmonary syndrome SNOMED
      196455 — Hepatorenal syndrome SNOMED
      134718 — Hirsutism SNOMED
      376965 — Hypertensive retinopathy SNOMED
      316866 — Hypertensive disorder SNOMED
      4120314 — Hypertriglyceridemia SNOMED
      45766189 — Hypoxic ischemic encephalopathy SNOMED
      4302654 — Itching SNOMED
      137977 — Jaundice SNOMED
      37167217 — De novo thrombotic microangiopathy following transplant of kidney SNOMED
      4184746 — Left ventricular hypertrophy SNOMED
      315085 — Lymphadenopathy SNOMED
      75004 — Frank hematuria SNOMED
      31967 — Nausea SNOMED
      4306451 — Oliguria SNOMED
      4094986 — Ulcer of mouth SNOMED
      4290672 — Acholic stool SNOMED
      140214 — Eruption SNOMED
      377091 — Seizure SNOMED
      4083797 — Telangiectasia disorder SNOMED
      200527 — Splenomegaly SNOMED
      138455 — Stomatitis SNOMED
      4261202 — Uremia SNOMED
      4318546 — Stenosis of ureter SNOMED
      374034 — Visual disturbance SNOMED
      441408 — Vomiting SNOMED
      2000000033 — Histological evidence of MMF-related enteropathy PROTECT-CHILD
    OBSERVATION · observation_concept_id 376961 — Disturbance of consciousness SNOMED
      4223659 — Fatigue SNOMED
      4272240 — Malaise SNOMED
      4134010 — Weight decreased SNOMED
      2000000028 — Histological evidence of monoclonal proliferation PROTECT-CHILD
      2000000037 — Histological evidence on biospy PROTECT-CHILD
    PROCEDURE_OCCURRENCE · procedure_concept_id 4304943 — Endoscopic retrograde cholangiopancreatography SNOMED
      44789813 — Percutaneous transhepatic biliary drainage single SNOMED
diuresis_value Observation.component[diuresis_value].valueQuantity MEASUREMENT · measurement_concept_id 4247279 — Diuresis SNOMED
    MEASUREMENT · unit_concept_id 8752 — millimeter per hour UCUM

Concomitant Medication

DM field FHIR element OMOP table · field OMOP concept Vocabulary
concomitant_medication_id MedicationStatement.identifier.value DRUG_EXPOSURE · drug_exposure_id — —
visit_id MedicationStatement.context DRUG_EXPOSURE · visit_occurrence_id — —
medication_name MedicationStatement.medicationCodeableConcept.text DRUG_EXPOSURE · drug_concept_id — —
dose MedicationStatement.dosage.doseAndRate.doseQuantity OBSERVATION · observation_concept_id 4162374 — Drug dose SNOMED
start_date MedicationStatement.effectivePeriod.start DRUG_EXPOSURE · drug_exposure_start_date — —
status MedicationStatement.status OBSERVATION · observation_concept_id 2000000043 — Ongoing medication PROTECT-CHILD
end_date MedicationStatement.effectivePeriod.end DRUG_EXPOSURE · drug_exposure_end_date — —

Microbiology

DM field FHIR element OMOP table · field OMOP concept Vocabulary
visit_id Observation.encounter MEASUREMENT · visit_occurrence_id — —
ebv_dna Observation.component[ebvDna].valueBoolean MEASUREMENT · measurement_concept_id 3012570 — Epstein Barr virus DNA [Presence] in Blood by NAA with probe detection LOINC
    MEASUREMENT · value_as_concept_id 45878583 — Negative LOINC
      45884084 — Positive LOINC
ebv_dna_copies Observation.component[ebvDnaCopies].valueQuantity MEASUREMENT · measurement_concept_id 3037329 — Epstein Barr virus DNA [#/volume] (viral load) in Blood by NAA with probe detection LOINC
    MEASUREMENT · unit_concept_id 8799 — copies per milliliter UCUM
ebv_igm_anti_ea Observation.component[ebvIgmAntiEa].valueBoolean MEASUREMENT · measurement_concept_id 3033477 — Epstein Barr virus early Ab [Presence] in Serum LOINC
    MEASUREMENT · value_as_concept_id 45878583 — Negative LOINC
      45884084 — Positive LOINC
ebv_igm_anti_vca Observation.component[ebvIgmAntiVca].valueBoolean MEASUREMENT · measurement_concept_id 3012732 — Epstein Barr virus nuclear IgM Ab [Presence] in Serum LOINC
    MEASUREMENT · value_as_concept_id 45878583 — Negative LOINC
      45884084 — Positive LOINC
ebv_igg_anti_vca Observation.component[ebvIggAntiVca].valueBoolean MEASUREMENT · measurement_concept_id 3006585 — Epstein Barr virus capsid IgG Ab [Presence] in Serum LOINC
    MEASUREMENT · value_as_concept_id 45878583 — Negative LOINC
      45884084 — Positive LOINC
ebv_igg_ebna Observation.component[ebvIggEbna].valueBoolean MEASUREMENT · measurement_concept_id 3021849 — Epstein Barr virus nuclear IgG Ab [Presence] in Serum LOINC
    MEASUREMENT · value_as_concept_id 45878583 — Negative LOINC
      45884084 — Positive LOINC
cmv_dna Observation.component[cmvDna].valueBoolean MEASUREMENT · measurement_concept_id 3021884 — Cytomegalovirus DNA [Presence] in Blood by NAA with probe detection LOINC
    MEASUREMENT · value_as_concept_id 45878583 — Negative LOINC
      45884084 — Positive LOINC
cmv_dna_copies Observation.component[cmvDnaCopies].valueQuantity MEASUREMENT · measurement_concept_id 3024974 — Cytomegalovirus DNA [#/volume] (viral load) in Blood by NAA with probe detection LOINC
    MEASUREMENT · unit_concept_id 8799 — copies per milliliter UCUM
cmv_igm Observation.component[cmvIgm].valueBoolean MEASUREMENT · measurement_concept_id 3013332 — Cytomegalovirus IgM Ab [Presence] in Serum or Plasma LOINC
    MEASUREMENT · value_as_concept_id 45878583 — Negative LOINC
      45884084 — Positive LOINC
cmv_igg Observation.component[cmvIgg].valueBoolean MEASUREMENT · measurement_concept_id 3012887 — Cytomegalovirus IgG Ab [Presence] in Serum or Plasma by Immunoassay LOINC
    MEASUREMENT · value_as_concept_id 45878583 — Negative LOINC
      45884084 — Positive LOINC
parvovirus_b19_dna Observation.component[parvoB19Dna].valueBoolean MEASUREMENT · measurement_concept_id 3032435 — Parvovirus B19 DNA [Presence] in Blood by NAA with probe detection LOINC
    MEASUREMENT · value_as_concept_id 45878583 — Negative LOINC
      45884084 — Positive LOINC
parvovirus_b19_dna_copies Observation.component[parvoB19DnaCopies].valueQuantity MEASUREMENT · measurement_concept_id 3032993 — Parvovirus B19 DNA [#/volume] (viral load) in Blood by NAA with probe detection LOINC
    MEASUREMENT · unit_concept_id 8799 — copies per milliliter UCUM
parvovirus_b19_igg Observation.component[parvoB19Igg].valueBoolean MEASUREMENT · measurement_concept_id 3006410 — Parvovirus B19 IgG Ab [Presence] in Serum LOINC
    MEASUREMENT · value_as_concept_id 45878583 — Negative LOINC
      45884084 — Positive LOINC
parvovirus_b19_igm Observation.component[parvoB19Igm].valueBoolean MEASUREMENT · measurement_concept_id 3008321 — Parvovirus B19 IgM Ab [Presence] in Serum LOINC
    MEASUREMENT · value_as_concept_id 45878583 — Negative LOINC
      45884084 — Positive LOINC
hsv_igg Observation.component[hsvIgg].valueBoolean MEASUREMENT · measurement_concept_id 3020134 — Herpes simplex virus IgG Ab [Presence] in Serum LOINC
    MEASUREMENT · value_as_concept_id 45880296 — Not detected LOINC
      45877985 — Detected LOINC
hsv_igm Observation.component[hsvIgm].valueBoolean MEASUREMENT · measurement_concept_id 3010761 — Herpes simplex virus IgM Ab [Presence] in Serum LOINC
    MEASUREMENT · value_as_concept_id 45878583 — Negative LOINC
      45884084 — Positive LOINC
adenovirus_igg Observation.component[adenovirusIgg].valueBoolean MEASUREMENT · measurement_concept_id 3040947 — Adenovirus IgG Ab [Presence] in Serum LOINC
    MEASUREMENT · value_as_concept_id 45878583 — Negative LOINC
      45884084 — Positive LOINC
adenovirus_igm Observation.component[adenovirusIgm].valueBoolean MEASUREMENT · measurement_concept_id 3036242 — Adenovirus IgM Ab [Presence] in Serum LOINC
    MEASUREMENT · value_as_concept_id 45878583 — Negative LOINC
      45884084 — Positive LOINC
blood_adenovirus_dna Observation.component[bloodAdenovirusDna].valueBoolean MEASUREMENT · measurement_concept_id 36203755 — Adenovirus DNA [Presence] in Blood by NAA with probe detection LOINC
    MEASUREMENT · value_as_concept_id 45878583 — Negative LOINC
      45884084 — Positive LOINC
blood_adenovirus_dna_copies Observation.component[bloodAdenovirusDnaCopies].valueQuantity MEASUREMENT · measurement_concept_id 3028979 — Adenovirus DNA [#/volume] (viral load) in Blood by NAA with probe detection LOINC
    MEASUREMENT · unit_concept_id 8799 — copies per milliliter UCUM
vzv_igg Observation.component[vzvIgg].valueBoolean MEASUREMENT · measurement_concept_id 3022386 — Varicella zoster virus IgG Ab [Presence] in Serum LOINC
    MEASUREMENT · value_as_concept_id 45878583 — Negative LOINC
      45884084 — Positive LOINC
vzv_igm Observation.component[vzvIgm].valueBoolean MEASUREMENT · measurement_concept_id 3016065 — Varicella zoster virus IgM Ab [Presence] in Serum LOINC
    MEASUREMENT · value_as_concept_id 45878583 — Negative LOINC
      45884084 — Positive LOINC
blood_bkv_dna Observation.component[bloodBkvDna].valueBoolean MEASUREMENT · measurement_concept_id 40766205 — BK virus DNA [Presence] in Blood LOINC
    MEASUREMENT · value_as_concept_id 45878583 — Negative LOINC
      45884084 — Positive LOINC
blood_bkv_dna_copies Observation.component[bloodBkvDnaCopies].valueQuantity MEASUREMENT · measurement_concept_id 3029226 — BK virus DNA [#/volume] (viral load) in Blood by NAA with probe detection LOINC
    MEASUREMENT · unit_concept_id 8799 — copies per milliliter UCUM
urine_bkv_dna Observation.component[urineBkvDna].valueBoolean MEASUREMENT · measurement_concept_id 3029173 — BK virus DNA [Presence] in Urine by NAA with probe detection LOINC
    MEASUREMENT · value_as_concept_id 45880296 — Not detected LOINC
      45877985 — Detected LOINC
bkv_dna_kidney_biopsy Observation.component[bkvDnaKidneyBiopsy].valueBoolean MEASUREMENT · measurement_concept_id 1091792 — BK virus DNA [Presence] in Specimen LOINC
    MEASUREMENT · value_as_concept_id 45880296 — Not detected LOINC
      45877985 — Detected LOINC
bkv_fish_kidney_biopsy Observation.component[bkvFishKidneyBiopsy].valueBoolean MEASUREMENT · measurement_concept_id 1091792 — BK virus DNA [Presence] in Specimen LOINC
    MEASUREMENT · value_as_concept_id 45880296 — Not detected LOINC
      45877985 — Detected LOINC
    OBSERVATION · observation_concept_id 1073315 — Fluorescence in situ hybridization technique SNOMED
blood_colture Observation.component[bloodColture].valueBoolean MEASUREMENT · measurement_concept_id 4107893 — Blood culture SNOMED
    MEASUREMENT · value_as_concept_id 9189 — Negative SNOMED
      9191 — Positive SNOMED
urine_colture Observation.component[urineColture].valueBoolean MEASUREMENT · measurement_concept_id 4024509 — Urine culture SNOMED
    MEASUREMENT · value_as_concept_id 9189 — Negative SNOMED
      9191 — Positive SNOMED
ebv_hepatitis_liver Condition.code CONDITION_OCCURRENCE · condition_concept_id 4119142 — Epstein-Barr virus hepatitis SNOMED
evidence_bkvan Condition.code CONDITION_OCCURRENCE · condition_concept_id 37017585 — BK virus nephropathy SNOMED

Instrumental Investigation

DM field FHIR element OMOP table · field OMOP concept Vocabulary
visit_id Observation.encounter VISIT_OCCURRENCE · visit_occurrence_id — —
instrumental_investigation Observation.code PROCEDURE_OCCURRENCE · procedure_concept_id 4061009 — CT of abdomen SNOMED
      4083230 — MRI of abdomen SNOMED
      4299523 — Angiography SNOMED
      4303663 — CT angiography with contrast SNOMED
      37311324 — MRI of brain SNOMED
      4329502 — SPECT of kidney using dimercaptosuccinic acid SNOMED
      37152490 — Doppler ultrasonography SNOMED
      4346528 — Renal isotope studies SNOMED
      4230911 — Echocardiography SNOMED
      4163951 — Electrocardiographic procedure SNOMED
      4181917 — Electroencephalogram SNOMED
      4217034 — Kidney biopsy SNOMED
      4167052 — Doppler ultrasonography of kidney SNOMED
      4147846 — Echography of kidney SNOMED
      4314001 — Biopsy of liver SNOMED
      4160708 — Doppler ultrasonography of liver and portal system SNOMED
      4346948 — Tc99m-MAG3 renogram SNOMED
      4194588 — Magnetic resonance cholangiopancreatography SNOMED
      4168020 — Fluoroscopic micturating cystourethrography SNOMED
      4305790 — Positron emission tomography SNOMED
      4060500 — CAT scan - whole body SNOMED
      4037672 — Ultrasonography SNOMED
      40479203 — Ultrasound elastography of liver SNOMED
date Observation.effectiveDateTime PROCEDURE_OCCURRENCE · procedure_date — —
result Observation.valueCodeableConcept CONDITION_OCCURRENCE · condition_concept_id 4085245 — No abnormality detected SNOMED
      40484102 — Abnormal finding on evaluation procedure SNOMED

Immunosuppressant / ImmPat

DM field FHIR element OMOP table · field OMOP concept Vocabulary
name Medication.code DRUG_EXPOSURE · drug_concept_id 1506270 — methylprednisolone RxNorm
      1551099 — prednisone RxNorm
      950637 — tacrolimus RxNorm
      19010482 — cyclosporine RxNorm
      19003999 — mycophenolate mofetil RxNorm
      19012565 — mycophenolic acid RxNorm
      19038440 — basiliximab RxNorm
      19136207 — lymphocyte immune globulin, anti-thymocyte globulin RxNorm
      19011440 — everolimus RxNorm
      19034726 — sirolimus RxNorm
visit_id MedicationStatement.context DRUG_EXPOSURE · visit_occurrence_id — —
phase MedicationStatement.category OBSERVATION · qualifier_concept_id 905623 — Induction HemOnc
      763393 — Maintenance dose SNOMED
dose MedicationStatement.dosage.doseAndRate.doseQuantity.value OBSERVATION · observation_concept_id 4162374 — Drug dose SNOMED
pre_dose_level Observation.valueQuantity MEASUREMENT · measurement_concept_id 2000000013 — Measurement of trough drug concentration PROTECT-CHILD
csa_2h_post_dose_level Observation.valueQuantity MEASUREMENT · measurement_concept_id 40483123 — Measurement of ciclosporin 2 hours after dosing SNOMED
auc Observation.valueQuantity MEASUREMENT · measurement_concept_id 2000000022 — Measured AUC for [drug] PROTECT-CHILD
start_date MedicationStatement.effectivePeriod.start DRUG_EXPOSURE · drug_exposure_start_date — —
end_date MedicationStatement.effectivePeriod.end DRUG_EXPOSURE · drug_exposure_end_date — —
unit MedicationStatement.dosage.doseAndRate.doseQuantity.code OBSERVATION · unit_concept_id 9562 — milligram per kilogram UCUM
      9563 — milligram per square meter UCUM
      8576 — milligram UCUM

Laboratory

DM field FHIR element OMOP table · field OMOP concept Vocabulary
name ObservationDefinition.code MEASUREMENT · measurement_concept_id 3016723 — Creatinine [Mass/volume] in Serum or Plasma LOINC
      3020564 — Creatinine [Moles/volume] in Serum or Plasma LOINC
      3024561 — Albumin [Mass/volume] in Serum or Plasma LOINC
      3034485 — Albumin/Creatinine [Mass Ratio] in Urine LOINC
      46236949 — Alanine aminotransferase [Enzymatic activity/volume] in Serum, Plasma or Blood LOINC
      3023183 — Ammonium ion [Moles/volume] in Plasma LOINC
      3022592 — Ammonium ion [Moles/volume] in Arterial blood LOINC
      3013721 — Aspartate aminotransferase [Enzymatic activity/volume] in Serum or Plasma LOINC
      3026217 — Bile acid [Mass/volume] in Serum LOINC
      3028110 — Bile acid [Moles/volume] in Serum or Plasma LOINC
      3006916 — Magnesium [Mass/volume] in Blood LOINC
      3033836 — Magnesium [Moles/volume] in Blood LOINC
      3010421 — pH of Blood LOINC
      3024232 — Phosphate [Mass/volume] in Blood LOINC
      3018913 — Phosphate [Moles/volume] in Blood LOINC
      3000620 — Complement C3 [Mass/volume] in Serum or Plasma LOINC
      3017766 — Complement C4 [Mass/volume] in Serum or Plasma LOINC
      3032503 — Calcium [Mass/volume] in Blood LOINC
      3005162 — Calcium [Moles/volume] in Blood LOINC
      3019900 — Cholesterol [Moles/volume] in Serum or Plasma LOINC
      3027114 — Cholesterol [Mass/volume] in Serum or Plasma LOINC
      3015185 — Cholinesterase [Enzymatic activity/volume] in Blood LOINC
      3022907 — Direct antiglobulin test.polyspecific reagent [Presence] on Red Blood Cells LOINC
      3029719 — Indirect antiglobulin test.unspecified reagent [Presence] in Serum or Plasma LOINC
      46236952 — Glomerular filtration rate [Volume Rate/Area] in Serum, Plasma or Blood by Creatinine-based formula (MDRD)/1.73 sq M LOINC
      3030366 — Cystatin C [Mass/volume] in Serum or Plasma LOINC
      3027597 — Bilirubin.direct [Mass/volume] in Serum or Plasma LOINC
      3028638 — Bilirubin.direct [Moles/volume] in Serum or Plasma LOINC
      3037110 — Fasting glucose [Mass/volume] in Serum or Plasma LOINC
      3018251 — Fasting glucose [Moles/volume] in Serum or Plasma LOINC
      36304157 — Cystatin C and Glomerular filtration rate by Cystatin C-based formula panel - Serum or Plasma LOINC
      3026910 — Gamma glutamyl transferase [Enzymatic activity/volume] in Serum or Plasma LOINC
      3004501 — Glucose [Mass/volume] in Serum or Plasma LOINC
      3013826 — Glucose [Moles/volume] in Serum or Plasma LOINC
      3012336 — Haptoglobin [Mass/volume] in Serum or Plasma LOINC
      3034639 — Hemoglobin A1c [Mass/volume] in Blood LOINC
      3004410 — Hemoglobin A1c/Hemoglobin.total in Blood LOINC
      3006576 — Bicarbonate [Moles/volume] in Blood LOINC
      3023314 — Hematocrit [Volume Fraction] of Blood by Automated count LOINC
      3000963 — Hemoglobin [Mass/volume] in Blood LOINC
      3007164 — IgA [Mass/volume] in Serum or Plasma LOINC
      3005719 — IgG [Mass/volume] in Serum or Plasma LOINC
      3028026 — IgM [Mass/volume] in Serum or Plasma LOINC
      3007242 — Bilirubin.indirect [Moles/volume] in Serum or Plasma LOINC
      3007359 — Bilirubin.indirect [Mass/volume] in Serum or Plasma LOINC
      3022217 — INR in Platelet poor plasma by Coagulation assay LOINC
      40762125 — Lactate [Mass/volume] in Blood LOINC
      3047181 — Lactate [Moles/volume] in Blood LOINC
      3016436 — Lactate dehydrogenase [Enzymatic activity/volume] in Serum or Plasma LOINC
      3018095 — Leukocytes [#/volume] in Blood LOINC
      4234268 — ANA measurement SNOMED
      4179789 — Smooth muscle antibody measurement SNOMED
      4015457 — Antibody to mitochondria measurement SNOMED
      37170564 — LKM 1 (liver-kidney microsomal 1) antibody arbitrary concentration in serum SNOMED
      44790054 — Anti liver cytosol type 1 antibody level SNOMED
      44790056 — Anti soluble liver antigen/liver-pancreas antibody level SNOMED
      2000000049 — Anti-gp210 antibody level PROTECT-CHILD
      2000000050 — Anti-sp100 antibody level PROTECT-CHILD
      4189395 — Perinuclear neutrophil cytoplasmic antibody level SNOMED
      3019198 — Lymphocytes [#/volume] in Blood LOINC
      37399254 — Percentage lymphocytes SNOMED
      3017732 — Neutrophils [#/volume] in Blood LOINC
      37398605 — Percentage neutrophils SNOMED
      3007090 — Glucose tolerance [Interpretation] in Serum or Plasma LOINC
      3007461 — Platelets [#/volume] in Blood LOINC
      3005456 — Potassium [Moles/volume] in Blood LOINC
      21490733 — Potassium [Mass/volume] in Blood LOINC
      3045462 — Protein/Creatinine [Ratio] in Urine LOINC
      3034426 — Prothrombin time (PT) LOINC
      4141751 — Parathyroid hormone measurement SNOMED
      37170628 — Total protein mass concentration in urine SNOMED
      3026361 — Erythrocytes [#/volume] in Blood LOINC
      37208985 — Schistocyte count in blood by automated count SNOMED
      3016293 — Bicarbonate [Moles/volume] in Serum or Plasma LOINC
      3019550 — Sodium [Moles/volume] in Serum or Plasma LOINC
      3000285 — Sodium [Moles/volume] in Blood LOINC
      3028833 — Bilirubin.total [Mass/volume] in Blood LOINC
      40757494 — Bilirubin.total [Moles/volume] in Blood LOINC
      4119650 — Total protein measurement SNOMED
      3022038 — Triglyceride [Mass/volume] in Blood LOINC
      42868692 — Triglyceride [Moles/volume] in Blood LOINC
      1469591 — Tubular cells [#/volume] in Urine sediment LOINC
      3034204 — Urea [Mass/volume] in Serum or Plasma LOINC
      3020779 — Urea [Moles/volume] in Serum or Plasma LOINC
      3037556 — Urate [Mass/volume] in Serum or Plasma LOINC
      3026493 — Urate [Moles/volume] in Serum or Plasma LOINC
      3006661 — Calcium [Mass/volume] in Urine LOINC
      3018133 — Calcium [Moles/volume] in Urine LOINC
      3007733 — Chloride [Moles/volume] in Urine LOINC
      3017250 — Creatinine [Mass/volume] in Urine LOINC
      3009508 — Creatinine [Moles/volume] in Urine LOINC
      3026729 — Phosphate [Mass/volume] in Urine LOINC
      3022229 — Phosphate [Moles/volume] in Urine LOINC
      3016038 — Potassium [Moles/volume] in Urine LOINC
      3002582 — Erythrocytes [#/volume] in Urine LOINC
      3003181 — Sodium [Moles/volume] in Urine LOINC
      4308739 — Vitamin D measurement SNOMED
visit_id Observation.encounter MEASUREMENT · visit_occurrence_id — —
date Observation.effectiveDateTime MEASUREMENT · measurement_date — —
unit Observation.valueQuantity.code MEASUREMENT · unit_concept_id 8840 — milligram per deciliter UCUM
      8749 — micromole per liter UCUM
      720870 — milliliter per minute per 1.73 square meter UCUM
      8751 — milligram per liter UCUM
      9490 — equivalent per liter UCUM
      8753 — millimole per liter UCUM
      8725 — nanogram per liter UCUM
      8736 — nanomole per liter UCUM
      8645 — unit per liter UCUM
      8554 — percent UCUM
      8636 — gram per liter UCUM
      8523 — ratio UCUM
      8713 — gram per deciliter UCUM
      8734 — trillion per liter UCUM
      9442 — million per liter UCUM
      8810 — kilounit per liter UCUM
      8555 — second UCUM
      8784 — cells per microliter UCUM
      8909 — milligram per 24 hours UCUM
      9565 — milligram per milligram UCUM
      44777612 — milligram per millimole UCUM
      8723 — milligram per gram UCUM
value Observation.valueQuantity.value MEASUREMENT · value_as_number — —

Clinical Event Type

DM field FHIR element OMOP table · field OMOP concept Vocabulary
name CodeSystem-clinical-event-type-cs concept display CONDITION_OCCURRENCE · condition_concept_id 2000000029 — Alloimmunization PROTECT-CHILD
      4043343 — Disorder of bile duct SNOMED
      37017585 — BK virus nephropathy SNOMED
      4340390 — Chronic hepatic failure SNOMED
      4198610 — Chronic rejection of liver transplant SNOMED
      198185 — Chronic renal failure SNOMED
      440032 — Cytomegalovirus infection SNOMED
      4138908 — Delayed renal graft function SNOMED
      201820 — Diabetes mellitus SNOMED
      4151240 — Transplanted organ failure SNOMED
      316866 — Hypertensive disorder SNOMED
      4128369 — Renal transplant rejection SNOMED
      2000000023 — Liver early allograft dysfunction PROTECT-CHILD
      4326594 — Abnormal liver function SNOMED
      4341657 — Liver transplant rejection SNOMED
      321876 — Disorder of capillaries SNOMED
      2000000015 — mTOR inhibitors poisoning PROTECT-CHILD
      2000000014 — Mycophenolate poisoning PROTECT-CHILD
      42872891 — Posterior reversible encephalopathy syndrome SNOMED
      435514 — Lymphoproliferative disorder following transplantation SNOMED
      2000000024 — Relapse of primary immunomediated disease PROTECT-CHILD
      45765696 — Calcineurin inhibitor poisoning SNOMED
      44809014 — Urological complication of renal transplant SNOMED
      197444 — Vascular complication of medical care SNOMED
    OBSERVATION · observation_concept_id 4192056 — Abnormal renal function SNOMED
      4306655 — Death SNOMED

Clinical Event

DM field FHIR element OMOP table · field OMOP concept Vocabulary
visit_id Condition.encounter VISIT_OCCURRENCE · visit_occurrence_id — —
dgf Condition.code CONDITION_OCCURRENCE · condition_concept_id 2000000032 — Delayed graft function PROTECT-CHILD
vascular_complication_type Condition.evidence.code CONDITION_OCCURRENCE · condition_concept_id 4223098 — Hepatic artery thrombosis SNOMED
      317003 — Compression of vein SNOMED
      199837 — Portal vein thrombosis SNOMED
episodes_aki_after_ltx Condition.code CONDITION_OCCURRENCE · condition_concept_id 197320 — Acute kidney injury SNOMED
histologic_evidence_cni_toxicity Condition.code CONDITION_OCCURRENCE · condition_concept_id 2000000035 — Histological evidence of CNI toxicity PROTECT-CHILD
hypoxic_ischemic_event_pltx Condition.code CONDITION_OCCURRENCE · condition_concept_id 2000000026 — Hypoxic ischemic event PROTECT-CHILD
dialysis_type Procedure.code PROCEDURE_OCCURRENCE · procedure_concept_id 4120120 — Hemodialysis SNOMED
      4324124 — Peritoneal dialysis SNOMED
dialysis_start_date Procedure.performedPeriod.start PROCEDURE_OCCURRENCE · procedure_date — —
dialysis_end_date Procedure.performedPeriod.end PROCEDURE_OCCURRENCE · procedure_end_date — —
cause_death Condition.note[cause_death].text DEATH · cause_concept_id — —
retransplantation_date Procedure.performedDateTime PROCEDURE_OCCURRENCE · procedure_date — —
treatment_adherence ClinicalEventFlagObservation.code OBSERVATION · observation_concept_id 36031908 — Adherence to treatment LOINC
    OBSERVATION · value_as_concept_id 36032717 — Adherent to treatment LOINC
      36032471 — Not adherent to treatment LOINC
date_entry_transplant_list Procedure.performedDateTime OBSERVATION · observation_concept_id 43020581 — On waiting list for organ transplant —
    OBSERVATION · observation_date — —

Across all entities, 156 data-model variables have a completed OMOP mapping, listed as 519 rows referencing 361 standard concepts and 39 custom PROTECT-CHILD concepts (plus structural/foreign-key fields).