replace mimic_core with mimic_hosp

Author: alistairewj

mimic-iv/concepts/comorbidity/charlson.sql

@@ -253,7 +253,7 @@ WITH diag AS
             SUBSTR(icd10_code, 1, 3) IN ('B20','B21','B22','B24')
             THEN 1 
             ELSE 0 END) AS aids
-    FROM `physionet-data.mimic_core.admissions` ad
+    FROM `physionet-data.mimic_hosp.admissions` ad
     LEFT JOIN diag
     ON ad.hadm_id = diag.hadm_id
     GROUP BY ad.hadm_id
@@ -303,7 +303,7 @@ SELECT
     + 2*paraplegia + 2*renal_disease 
     + 6*aids
     AS charlson_comorbidity_index
-FROM `physionet-data.mimic_core.admissions` ad
+FROM `physionet-data.mimic_hosp.admissions` ad
 LEFT JOIN com
 ON ad.hadm_id = com.hadm_id
 LEFT JOIN ag

mimic-iv/concepts/demographics/age.sql

@@ -22,7 +22,7 @@ SELECT
 	, pa.anchor_age
 	, pa.anchor_year
 	, DATETIME_DIFF(ad.admittime, DATETIME(pa.anchor_year, 1, 1, 0, 0, 0), YEAR) + pa.anchor_age AS age
-FROM `physionet-data.mimic_core.admissions` ad
-INNER JOIN `physionet-data.mimic_core.patients` pa
+FROM `physionet-data.mimic_hosp.admissions` ad
+INNER JOIN `physionet-data.mimic_hosp.patients` pa
 ON ad.subject_id = pa.subject_id
 ;

mimic-iv/concepts/demographics/icustay_detail.sql

@@ -25,7 +25,7 @@ SELECT ie.subject_id, ie.hadm_id, ie.stay_id
     ELSE False END AS first_icu_stay
 
 FROM `physionet-data.mimic_icu.icustays` ie
-INNER JOIN `physionet-data.mimic_core.admissions` adm
+INNER JOIN `physionet-data.mimic_hosp.admissions` adm
     ON ie.hadm_id = adm.hadm_id
-INNER JOIN `physionet-data.mimic_core.patients` pat
+INNER JOIN `physionet-data.mimic_hosp.patients` pat
     ON ie.subject_id = pat.subject_id

mimic-iv/concepts/measurement/creatinine_baseline.sql

@@ -19,7 +19,7 @@ WITH p as
             END 
             AS MDRD_est
     FROM `physionet-data.mimic_derived.age` ag
-    LEFT JOIN `physionet-data.mimic_core.patients` p
+    LEFT JOIN `physionet-data.mimic_hosp.patients` p
     ON ag.subject_id = p.subject_id
     WHERE ag.age >= 18
 )

mimic-iv/concepts/score/apsiii.sql

@@ -260,9 +260,9 @@ select ie.subject_id, ie.hadm_id, ie.stay_id
       , arf.arf as arf
 
 FROM `physionet-data.mimic_icu.icustays` ie
-inner join `physionet-data.mimic_core.admissions` adm
+inner join `physionet-data.mimic_hosp.admissions` adm
   on ie.hadm_id = adm.hadm_id
-inner join `physionet-data.mimic_core.patients` pat
+inner join `physionet-data.mimic_hosp.patients` pat
   on ie.subject_id = pat.subject_id
 
 -- join to above views - the row number filters to 1 row per stay_id

mimic-iv/concepts/score/lods.sql

@@ -101,9 +101,9 @@ select  ie.subject_id
       , uo.urineoutput
 
 FROM `physionet-data.mimic_icu.icustays` ie
-inner join `physionet-data.mimic_core.admissions` adm
+inner join `physionet-data.mimic_hosp.admissions` adm
   on ie.hadm_id = adm.hadm_id
-inner join `physionet-data.mimic_core.patients` pat
+inner join `physionet-data.mimic_hosp.patients` pat
   on ie.subject_id = pat.subject_id
 
 -- join to above view to get pao2/fio2 ratio

mimic-iv/concepts/score/oasis.sql

@@ -13,9 +13,9 @@
 -- Variables used in OASIS:
 --  Heart rate, GCS, MAP, Temperature, Respiratory rate, Ventilation status (sourced FROM `physionet-data.mimic_icu.chartevents`)
 --  Urine output (sourced from OUTPUTEVENTS)
---  Elective surgery (sourced FROM `physionet-data.mimic_core.admissions` and SERVICES)
---  Pre-ICU in-hospital length of stay (sourced FROM `physionet-data.mimic_core.admissions` and ICUSTAYS)
---  Age (sourced FROM `physionet-data.mimic_core.patients`)
+--  Elective surgery (sourced FROM `physionet-data.mimic_hosp.admissions` and SERVICES)
+--  Pre-ICU in-hospital length of stay (sourced FROM `physionet-data.mimic_hosp.admissions` and ICUSTAYS)
+--  Age (sourced FROM `physionet-data.mimic_hosp.patients`)
 
 -- Regarding missing values:
 --  The ventilation flag is always 0/1. It cannot be missing, since VENT=0 if no data is found for vent settings.
@@ -96,9 +96,9 @@ select ie.subject_id, ie.hadm_id, ie.stay_id
         as icustay_expire_flag
       , adm.hospital_expire_flag
 FROM `physionet-data.mimic_icu.icustays` ie
-inner join `physionet-data.mimic_core.admissions` adm
+inner join `physionet-data.mimic_hosp.admissions` adm
   on ie.hadm_id = adm.hadm_id
-inner join `physionet-data.mimic_core.patients` pat
+inner join `physionet-data.mimic_hosp.patients` pat
   on ie.subject_id = pat.subject_id
 LEFT JOIN `physionet-data.mimic_derived.age` ag
   ON ie.hadm_id = ag.hadm_id

mimic-iv/concepts/score/sapsii.sql

@@ -55,7 +55,7 @@ with co as
       PARTITION BY adm.HADM_ID
       ORDER BY TRANSFERTIME
     ) as serviceOrder
-  from `physionet-data.mimic_core.admissions` adm
+  from `physionet-data.mimic_hosp.admissions` adm
   left join `physionet-data.mimic_hosp.services` se
     on adm.hadm_id = se.hadm_id
 )
@@ -277,7 +277,7 @@ select
 
 
 from `physionet-data.mimic_icu.icustays` ie
-inner join `physionet-data.mimic_core.admissions` adm
+inner join `physionet-data.mimic_hosp.admissions` adm
   on ie.hadm_id = adm.hadm_id
 LEFT JOIN `physionet-data.mimic_derived.age` va
   on ie.hadm_id = va.hadm_id