mimic-creatinine-baseline

Reference SQL (matched-content control)

The following block is the public reference SQL used to construct the ground truth for this task. It is provided verbatim, without procedural prose, to test whether matched task-relevant content alone explains the WITH-SKILL gain.

-- ------------------------------------------------------------------
-- Title: Baseline Creatinine Estimation
-- Estimates baseline (pre-illness) serum creatinine for each hospital
-- admission using a hierarchical approach: (1) observed minimum if
-- <= 1.1, (2) observed minimum if CKD, (3) MDRD-estimated at eGFR=75.
-- ------------------------------------------------------------------

-- Reference:
--    Siew ED et al. "Estimating baseline kidney function in
--    hospitalized patients with impaired kidney function."
--    Clin J Am Soc Nephrol. 2012;7(5):712-719.

-- Adapted from mimic-code creatinine_baseline.sql
-- Adults only (age >= 18).

WITH p AS (
  SELECT
    ag.subject_id,
    ag.hadm_id,
    ag.age,
    p.gender,
    CASE
      WHEN p.gender = 'F'
      THEN POWER(75.0 / 186.0 / POWER(ag.age, -0.203) / 0.742, -1 / 1.154)
      ELSE POWER(75.0 / 186.0 / POWER(ag.age, -0.203), -1 / 1.154)
    END AS mdrd_est
  FROM mimiciv_derived.age AS ag
  LEFT JOIN mimiciv_hosp.patients AS p
    ON ag.subject_id = p.subject_id
  WHERE
    ag.age >= 18
), lab AS (
  SELECT
    hadm_id,
    MIN(creatinine) AS scr_min
  FROM mimiciv_derived.chemistry
  GROUP BY
    hadm_id
), ckd AS (
  SELECT
    hadm_id,
    MAX(1) AS ckd_flag
  FROM mimiciv_hosp.diagnoses_icd
  WHERE
    (
      SUBSTR(icd_code, 1, 3) = '585' AND icd_version = 9
    )
    OR (
      SUBSTR(icd_code, 1, 3) = 'N18' AND icd_version = 10
    )
  GROUP BY
    hadm_id
)
SELECT
  p.hadm_id,
  p.gender,
  p.age,
  lab.scr_min,
  COALESCE(ckd.ckd_flag, 0) AS ckd,
  p.mdrd_est,
  CASE
    WHEN lab.scr_min <= 1.1
    THEN scr_min
    WHEN ckd.ckd_flag = 1
    THEN scr_min
    ELSE mdrd_est
  END AS scr_baseline
FROM p
LEFT JOIN lab
  ON p.hadm_id = lab.hadm_id
LEFT JOIN ckd
  ON p.hadm_id = ckd.hadm_id