I am trying to associate the “MIMIC II Waveform Matched database” to the “MIMIC III Clinical database”, but my results are suspicious.

According to the documentation, the “sNNNN” identifier of the matched waveform database should be the same as the SUBJECT_ID of the Clinical database.

Citation from the documentation:

…Each subdirectory of this directory contains one or more MIMIC II Waveform Database records that have been matched with a single subject (whose MIMIC II Clinical Database Subject_ID is the name of the subdirectory). The name of each mimic2wdb/matchedwaveform record is of the form sNNNNN/sNNNNN-YYYY-MM-DD-hh-mm where NNNNN is the matching MIMIC II Clinical Database Subject_ID, and YYYY, MM, DD, hh, and mm are the surrogate year, month (01-12), and day (01-31), and the real hour (00-23) and minute (00-59), derived from the starting date and time of day of themimic2wdb/matched record. The surrogate dates match those of the corresponding MIMIC II Clinical Database version 2.6 (or later) records; note that surrogate dates in previous versions of the MIMIC II Clinical Database differ from those in version 2.6 and later. …

However, doing so produces suspicious results. For example:

  1. The first two patients (in them of numerical ordering) of the waveform matched dataset are “s00001” and “s00020”. The first two patients of the clinical dataset are “2” and “3”.

  2. The first patient "in common" in the two databases is the patient “20” (s00020 = 20). However, the record dates are not matching: The record of patient “20” starts at “2567-03-30 17:47:00” for the matched waveform dataset, while it starts at “2183-04-28 09:45:00” for the clinical dataset.

Any idea how to solve the problem?


Link to the documentation:

MIMIC II Waveform Matched database: http://www.physionet.org/physiobank/database/mimic2wdb/matched/

MIMIC-III Clinical Database https://physionet.org/works/MIMICIIIClinicalDatabase/files/

1 Answer 1

  1. That missingness is perfectly valid. Some patient records were removed from the MIMIC database after they were added, potentially due to privacy concerns or corrupted data. You have to work with only the remaining patient records.

  2. It seems that the times were regenerated from scratch for MIMIC III. My suggestion is for you to get your hands on the MIMIC II v2.6 dataset and use the times from there.

    Here are the details for Patient 20 (I double-checked that the admit age and sex matched between MIMIC II and MIMIC III.)

    • The admit time is "2183-04-28 09:45:00"
      • from MIMIC III Clinical Database v1.3
    • The admit time is "2567-03-29 21:00:00"
      • from MIMIC II Clinical Database v2.6
    • The waveform start time is "2567-03-30 17:47:00"
      • from MIMIC II Waveform Database Matched Subset v3.1

Your Answer

By clicking “Post Your Answer”, you agree to our terms of service and acknowledge you have read our privacy policy.

Not the answer you're looking for? Browse other questions tagged or ask your own question.