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The PATS mappings are split into text and numeric fields.

Text Fields

Text fields are mapped to the i2b2 Observation Fact table like this

i2b2 Field	Source
Encounter_Num	i2b2 Patient ID
Patient_Num	i2b2 PatientID
Concept_Cd	Enum lookup value (see below)
Provider_Id	"@"
Start_Date	The source table observation date field (see below)
Modifier_Cd	"@"
ValType_Cd	"T" (text)
Units_Cd	"@"
Location_Cd	"@"
Update_Date	The current date using the GETDATE() Function
SourceSystem_Cd	"BRICCS"
Upload_Id	"1"

SOMETIME (RB): Convert Update_Date to use a date parameter. It's just a little quicker.

SOMETIME (RB): Should the SourceSystem_Cd not be "PATS"? Or maybe "MINAP" or whatever.

SOMETIME (RB): The Upload_Id is presumably always one because everything is reloaded each time. Might be nice to change this to something more meaningful.

Enum Lookup Value

The Concept Code to use is found in the table DATA_DICTIONARY_ENUM_VALUES in the DWBRICCS database on UHLDWH server. This table contains records for concept code keyed on source table name, column name and column value. NULL column values may be mapped to the field '(empty)'.

ACTION (RB): Check if all possible values of column value contain a mapping in the DATA_DICTIONARY_ENUM_VALUES table.

Source Table Observation Date Field

For each source table in the there is a single field that is used as the start date for all columns from that field. The observation date field to use for each table is stored in the pats_tables table in the DWBRICS on the UHLDWH server.

Numeric Fields

Numeric fields are mapped to the i2b2 Observation Fact table like this

i2b2 Field	Source
Encounter_Num	i2b2 Patient ID
Patient_Num	i2b2 PatientID
Concept_Cd	"PTS:{TABLE_NAME}_{COLUMN_ID}"
Provider_Id	"@"
Start_Date	The source table observation date field (see above)
Modifier_Cd	"@"
ValType_Cd	"N" (numeric)
TVal_Char	"E" (see below)
Units_Cd	Value calculated by ufn_get_units function (see below)
Location_Cd	"@"
Update_Date	The current date using the GETDATE() Function
SourceSystem_Cd	"BRICCS"
Upload_Id	"1"

TVal_Char

The TVal_Char describes the meaning of the value contained in the NVal_Num field.

For all values currently the value of TVal_Char is set to "E", which means equals. That is, the value in the NVal_Num field is the result of the test. All possible values of TVal_Char are:

Value	Meaning
E	Equals
NE	Not Equal
L	Less Than
LE	Less Than or Equals
G	Greater Than
GE	Greater Than or Equals

From a casual look at the data, I think that a value of less than X, or greater than Y is sometimes used for Pathology data.

ufn_get_units Function

The function ufn_get_units in the DWBRICCS database is called with parameters of table_name and field_name to determine the units.

ACTION (RB): Work out what this function actually does and then move the logic into a join if possible. This should be clearer and also quicker.

Tables

CATH_CATHINITIALVW

Field Name	Column ID	Type	Comments
EntryId	1	int
PatientId	2	int
DateofCatheter	3	date
TimeofCatheter	4	time
EntryStatus	5	varchar
PreviousEntry	6	int
NextEntry	7	int
DateOfAdmission	8	date
AgeAtCatheter	9	int
DoneInMobileLab	10	varchar
Consultant	11	varchar
Operator	12	varchar
SecondOperator	13	varchar
Technician	14	varchar
PatientType	15	varchar
WasThePatientCatheterised	16	varchar
ProcedureType	17	varchar
GeneralAnaesthetics	18	varchar
ProcedureSite	19	varchar
BiopsyTaken	20	varchar
BiopsySite	21	varchar
OtherProcedure	22	varchar
Arterial_1	23	varchar
Vessel_1_Arterial	24	varchar
Complicated_1_Arterial	25	varchar
Arterial_2	26	varchar
Vessel_2_Arterial	27	varchar
Complicated2Arterial	28	varchar
Arterial_3	29	varchar
Vessel_3_Arterial	30	varchar
Complicated_3_Arterial	31	varchar
Venous_1	32	varchar
Vessel_1_Venous	33	varchar
Complicated_1_Venous	34	varchar
Venous_2	35	varchar
Vessel_2_Venous	36	varchar
Complicated_2_Venous	37	varchar
Venous_3	38	varchar
Vessel_3_Venous	39	varchar
Complicated_3_Venous	40	varchar
Vessels	41	varchar
ReturnedTo	42	varchar
FurtherProcedure	43	varchar
ImmediateComplications	44	varchar
ProcedureAbandoned	45	varchar
ReasonForAbandoningProcedure	46	varchar
OtherComplications	47	varchar
DiedInCathLab	48	varchar
CoronaryDisease	49	varchar
SignificantValveDisease	50	varchar
SignificantLvDisease	51	varchar
Outcome	52	varchar
ReturnToCathLab	53	varchar
EmbolicSequelae	54	varchar
NonEmergencySurgery	55	varchar
GroinComplication	56	varchar
Death	57	varchar
DischargeComplications	58	varchar
OutcomeOfCatheter	59	varchar
DateOfDischarge	60	date
DateOfDeath	61	date
DischargeTo	62	varchar
PreopStay_days	63	int
PostOpStay_days	64	int
TotalHospitalStay	65	int
IhdScore_cardwl	66	int
NihdScore_cardwl	67	int
OtherComplicationsPreDischarge	68	varchar
DateOfDeathPostDischarge	69	date
PostProcedureDeathInterval_days	70	int
FormsVerified	71	varchar
Contract	72	varchar
Pcg	73	varchar
AuditLoopClosed	74	varchar
DateAuditLoopClosed	75	date
ReasonAuditLoopClosed	76	varchar
IntervalBetweenProc_LoopClosed_days	77	int
DateOnWaitingList	78	date
DaysOnList	79	int
GpPracticeCode	80	varchar
Pct	81	varchar
MedicalRecordNumber	82	varchar
AdministrativeCategory	83	varchar
AuditTrail	84	text
DateAndTimeOfProcedure	85	varchar
IsThisAcs	86	varchar
Sub_Xiphoid	87	varchar
PreDischargeComplications	88	varchar
IfOtherPreDischargeComplicationsPleaseState	89	varchar
Height	90	float
Weight	91	float
Bmi	92	float
ScreeningTime	93	float
ScreeningDose	94	float
ExceededDrl	95	varchar
Radiographer	96	varchar
ReasonForExceedingDrl	97	varchar
CatheterProcedureReport	98	varchar
ConsultantCode	99	varchar
OperatorCode	100	varchar
SecondOperatorCode	101	varchar
TroponinPositive	102	varchar
DateOfCurrentStatus	103	date
DateOfEndStatus	104	date
DateTimeRecordCreated	105	varchar
DateTimeRecordLastChanged	106	varchar
EnteredByTag	107	varchar
EntryCurrentStatus	108	varchar
EntryEndStatus	109	varchar
HospitalTag	110	varchar
ImportLinkId	111	int

CS2003F_PostProcedure

Field Name	Column ID	Type	Comments
EntryId	1	int
PatientId	2	int
Pre_OperativeStayInDays	3	int
Post_OperativeStayInDays	4	int
TotalStayInDays	5	int
ParsonnetScoreFromHardData	6	int
CardiopulmonaryBypass	7	varchar
ParsonnetScoreWithCatastrophicStatesAndRareConditi	8	int
PredominantMyocardialProtection	9	varchar
Parsonnet_AdditionsForCatastrophicStates	10	int
Parsonnet_AdditionsForRareConditions	11	int
Euroscore	12	int
Cs1999ComplexCabgBayesScore	13	float
LogisticEuroscore	14	float
Cardioplegia_Solution	15	varchar
Cardioplegia_Temperature	16	varchar
Cardioplegia_Timing	17	varchar
Non_CardioplegiaMyocardialProtection	18	varchar
Intra_AorticBalloonPumpUsed	19	varchar
ReaonForIabpUse	20	varchar
HeightInCm	21	int
WeightInKg	22	float
CumulativeBypassTimeInMin	23	int
CumulativeCrossClampTimeInMin	24	int
TotalCirculatoryArrestTimeInMin	25	int
Re_Operation	26	varchar
NewPost_OperativeStroke	27	varchar
NewHaemofiltration_DialysisPost_Operatively	28	varchar
DischargeDestination_FromCardiothoracicWard	29	varchar
DateOfDischargeOrDeath	30	datetime
BodySurfaceArea	31	float
BodyMassIndex	32	float
Cardioplegia_Infusion	33	varchar
EuroscoreMinumumDatasetCheck	34	varchar
ParsonnetMinumumDatasetCheck	35	varchar
NameOfGpAtTimeOfSurgery	36	varchar
GpPracticeCodeAtTimeOfSurgery	37	varchar
PctAtTimeOfSurgery	38	varchar
NameOfReferringGpAtTimeOfSurgeryType8	39	varchar
ToePerformed	40	varchar
Sonographer	41	varchar
Sonographist	42	varchar
PrimaryPerfusionist	43	varchar
PcuPatient_pcu	44	varchar
DoesPatientMeetInterOperativeCriteria_pcu	45	varchar
AreaPatientAdmittedTo_pcu	46	varchar
AdmissionTimeToRecovery_cicu_pcu	47	varchar
ExtubationDateAndTime_pcu	48	varchar
WhatO2SystemWasUsed_pcu	49	varchar
TotalBloodLostOnDischargeFromRecovery_pcu	50	varchar
WereClottingProductsUsed_pcu	51	varchar
WhatProductsWereUsed_pcu	52	varchar
HowMuchColloidUsedInRecovery_pcu	53	varchar
TypeOfColloidUsed_pcu	54	varchar
PainScoreOnWaking_pcu	55	varchar
AnalgesiaUsedPcu	56	varchar
TotalMorphineDoseUsedIncludingBolus_pcu	57	varchar
InotropesUsed_pcu	58	varchar
Dosage_pcu	59	varchar
WereThereAnyArrhythmias_pcu	60	varchar
PleaseStateArrhythmias_pcu	61	varchar
TreatmentOfArrhythmias_pcu	62	varchar
PotassiumUsed_pcu	63	varchar
PotassiumDoseInMmols_pcu	64	varchar
TemperatureOnAdmission_pcu	65	float
BairhuggerWithPatient_pcu	66	varchar
TimeOfDischarge_pcu	67	varchar
PlaceOfDischarge_pcu	68	varchar
DoesPatientMeetDischargeCriteria_pcu	69	varchar
WasPatientDischargedFromPcuToHdu_pcu	70	varchar
LowUrineOutput_pcu	71	varchar
IfNoStateWhy_pcu	72	varchar
IfNoWhy_pcu	73	varchar
AmountOfTimeIntubated_pcu	74	float
AmountOfTimeInRecovery_cicu_pcu	75	float
OverallComments_sa	76	varchar
TeachingOfOtherStaffComments_sa	77	varchar
TeachingOfOtherStaffCommentsMade_sa	78	varchar
TeachingOfOtherStaffBySa_sa	79	varchar
IabpRemovalComments_sa	80	varchar
IabpRemovalCommentsMade_sa	81	varchar
IabpRemovalBySa_sa	82	varchar
IabpInsertionComments_sa	83	varchar
IabpInsertionCommentsMade_sa	84	varchar
IabpInsertionBySa_sa	85	varchar
SternotomyClosureComments_sa	86	varchar
SternotomyClosureCommentsMade_sa	87	varchar
SternotomyClosureBySa_sa	88	varchar
SternotomyComments_sa	89	varchar
SternotomyCommentsMade_sa	90	varchar
SternotomyPerformedBySa_sa	91	varchar
ThirdSiteComments_sa	92	varchar
ThirdSiteCommentsMade_sa	93	varchar
ThirdSiteConduit_location_sa	94	varchar
SecondSiteComments_sa	95	varchar
SecondSiteCommentsMade_sa	96	varchar
SecondSiteConduit_location_sa	97	varchar
FirstSiteComments_sa	98	varchar
FirstSiteCommentsMade_sa	99	varchar
FirstSiteConduei_location_sa	100	varchar
ThirdAssistant_sa	101	varchar
SecondAssistant_sa	102	varchar
FirstAssistant_sa	103	varchar
SurgicalAssistant_sa	104	varchar
ReferralToOperation_days	105	float
Arrhythmia_S	106	varchar
LowCardiacOutput	107	varchar
Ventilation	108	varchar
PulmonaryComplications	109	varchar
RenalComplications	110	varchar
GastrointestinalComplications	111	varchar
InfectiveComplications	112	varchar
CauseOfDeath	113	varchar
AdmittedFrom_hospitalNameOrWard	114	varchar
AdmittedToCardiacSurgery	115	datetime
DischargedFromCardiacSurgery	116	datetime
TotalCardiacSurgeryLosDays	117	float
DateOfFollowUp	118	datetime
BloodUsed	119	varchar
MutisystemFailure	120	varchar
DateFirstAdmittedToCicu	121	datetime
DateFirstDischargedFromCicu	122	datetime
TotalFirstStayOnCicu	123	float
ReAdmittedToCicu	124	varchar
DateOfSecondAdmissionToCicu	125	datetime
DateOfSecondDischargeFromCicu	126	datetime
SecondAdmissionTotalStay_nignts	127	float
DateOfThirdAdmissionToCicu	128	datetime
DateOfThirdDischargeFromCicu	129	datetime
ThirdAdmissionToCicuTotalStay_nights	130	float
InsertionOfPacemakerWiresViaVatsProcedure	131	varchar
IntubationTimeInHours	132	int
AuditTrail	133	varchar
NameOfDoctorCompletingBooklet	134	varchar
SecondPrimaryPerfusionist	135	varchar
SecondBypass	136	varchar
SecondMyocardialProtection	137	varchar
SecondCardioplegiaSolution	138	varchar
SecondCardioplegiaInfusion	139	varchar
SecondCardioplegiaTemperature	140	varchar
SecondCardioplegiaTiming	141	varchar
SecondNon_CardioplegiaMyocardialProtection	142	varchar
DoesPatientNeedAFollowUpAppiontment	143	varchar
Comments	144	varchar
MedicalRecordNumber	145	varchar
DateAddedToW_l	146	datetime
AddedToW_l	147	varchar
DateOfFourthAdmissionToCicu	148	datetime
DateOfFourthDischargeFromCicu	149	datetime
DateOfFifthAdmissionToCicu	150	datetime
DateOfFifthDischargeFromCicu	151	datetime
CumulativeStayFirstAndSecondAdmissionToCicu	152	float
Cumulative1st2ndAnd3rdStayInCicu	153	float
FourthAdmissionToCicuTotalStay_nights	154	float
Cumulative1st2nd3rd4thStayInCicu	155	float
FifthAdmissionToCicuTotalStay_nights	156	float
Cumulative1sr2nd3rd4th5thStayInCicu	157	float
PatientIdentifiedForSamedayAdmission	158	varchar
ProposedDateOfAdmission	159	datetime
IfNotOperatedOnSamedayGiveReason	160	varchar
SecondBypassTotal	161	int
SecondCrossClampTotal	162	int
SecondCiculatoryArrestTotal	163	int
CouncilCase	164	varchar
InitialConsultantInJointCase	165	varchar
ArrhythmiaOtherComplicationFreeText	166	varchar
LowCardiacOutputOtherComplicationFreeText	167	varchar
PulmonaryOtherComplicationFreeText	168	varchar
RenalOtherComplicationFreeText	169	varchar
GastrointestinalOtherComplicationFreeText	170	varchar
InfectiveOtherComplicationFreeText	171	varchar
SickNoteOffered	172	varchar
IfSickNoteOfferedDurationInDays	173	int
AdviceToGpAndAnyMedicationChangedOrStopped	174	varchar
NameOfDischargingDoctor	175	varchar
GradeOfDischargingDoctor	176	varchar
PagerNumber	177	varchar
DrugSensitivity	178	varchar
Drug1	179	varchar
DrugRoute1	180	varchar
NumberOfDays1	181	int
Continue1	182	varchar
Drug2	183	varchar
DrugRoute2	184	varchar
NumberOfDays2	185	int
Continue2	186	varchar
Drug3	187	varchar
DrugRoute3	188	varchar
NumberOfDays3	189	int
Continue3	190	varchar
Drug4	191	varchar
DrugRoute4	192	varchar
NumberOfDays4	193	int
Continue4	194	varchar
Drug5	195	varchar
DrugRoute5	196	varchar
NumberOfDays5	197	int
Continue5	198	varchar
Drug6	199	varchar
DrugRoute6	200	varchar
NumberOfDays6	201	int
Continue6	202	varchar
Drug7	203	varchar
DrugRoute7	204	varchar
NumberOfDays7	205	int
Continue7	206	varchar
Drug8	207	varchar
DrugRoute8	208	varchar
NumberOfDays8	209	int
Continue8	210	varchar
Drug9	211	varchar
DrugRoute9	212	varchar
NumberOfDays9	213	int
Continue9	214	varchar
Drug10	215	varchar
DrugRoute10	216	varchar
NumberOfDays10	217	int
Continue10	218	varchar
Drug11	219	varchar
DrugRoute11	220	varchar
NumberOfDays11	221	int
Continue11	222	varchar
Drug12	223	varchar
DrugRoute12	224	varchar
NumberOfDays12	225	int
Continue12	226	varchar
Drug13	227	varchar
DrugRoute13	228	varchar
NumberOfDays13	229	int
Continue13	230	varchar
Drug14	231	varchar
DrugRoute14	232	varchar
NumberOfDays14	233	int
Continue14	234	varchar
Drug15	235	varchar
DrugRoute15	236	varchar
NumberOfDays15	237	int
Continue15	238	varchar
Drug16	239	varchar
DrugRoute16	240	varchar
NumberOfDays16	241	int
Continue16	242	varchar
Drug17	243	varchar
DrugRoute17	244	varchar
NumberOfDays17	245	int
Continue17	246	varchar
Drug18	247	varchar
DrugRoute18	248	varchar
NumberOfDays18	249	int
Continue18	250	varchar
DrugNameAndStrength19	251	varchar
DrugForm19	252	varchar
DrugDose19	253	varchar
DrugRoute19	254	varchar
DrugFrequency19	255	varchar
NumberOfDays19	256	int
Continue19	257	varchar
DrugNameAndStrength20	258	varchar
DrugForm20	259	varchar
DrugDose20	260	varchar
DrugRoute20	261	varchar
DrugFrequency20	262	varchar
NumberOfDays20	263	int
Continue20	264	varchar
DrugNameAndStrength21	265	varchar
DrugForm21	266	varchar
DrugDose21	267	varchar
DrugRoute21	268	varchar
DrugFrequency21	269	varchar
NumberOfDays21	270	int
Continue21	271	varchar
DrugNameAndStrength22	272	varchar
DrugForm22	273	varchar
DrugDose22	274	varchar
DrugRoute22	275	varchar
DrugFrequency22	276	varchar
NumberOfDays22	277	int
Continue22	278	varchar
DrugNameAndStrength23	279	varchar
DrugForm23	280	varchar
DrugDose23	281	varchar
DrugRoute23	282	varchar
DrugFrequency23	283	varchar
NumberOfDays23	284	int
Continue23	285	varchar
DrugNameAndStrength24	286	varchar
DrugForm24	287	varchar
DrugDose24	288	varchar
DrugRoute24	289	varchar
DrugFrequency24	290	varchar
NumberOfDays24	291	int
Continue24	292	varchar
DischargeWard	293	varchar
Pharmacist	294	varchar
ManagementPlan	295	varchar
FollowUpRequired	296	varchar
FollowUpTimeInWeeks_months	297	varchar
MedicationChangedByPharmacist	298	varchar
StatePharmacistChanges	299	varchar
InformationGivenToPatient	300	varchar
DateTimeRecordCreated	301	datetime
DateTimeRecordLastChanged	302	datetime
EnteredByTag	303	varchar
HospitalTag	304	varchar
WHO_REGISTRY_INDICATOR	305	varchar
WHO_POSSIBLE_DUPLICATE	306	char

CS2003F_PreProcedure

CS2010F_PostProcedure

CS2010F_PreProcedure

EPS_EPSINIVW

GGHMINAP_GGHMINAP

GGHMINAPNEW

GGHMINAPNEW_GGHMINAPINIVW

GGHPACEICD_GGHPACEICDINIALVW

GGHPCI_FLWGGHPCIVIEW

GGHPCI_INITIALGGHPCIVIEW

LRIMINAPNEW

LRIMINAPNEW_LRIMINAPNEWINITIALVW

VERTED_VERTEDINIALVW