BIDMC PPG and Respiration Dataset

The new PhysioNet website is available at: https://physionet.org. We welcome your feedback.

Version 1 - June 2018

When referencing this material, please cite:

Pimentel, M.A.F. et al. Towards a Robust Estimation of Respiratory Rate from Pulse Oximeters. IEEE Transactions on Biomedical Engineering, 64(8), pp.1914-1923, 2016. [DOI: 10.1109/TBME.2016.2613124](http://doi.org/10.1109/TBME.2016.2613124).

Please also include the standard citation for PhysioNet:

Goldberger AL, Amaral LAN, Glass L, Hausdorff JM, Ivanov PCh, Mark RG, Mietus JE, Moody GB, Peng C-K, Stanley HE. PhysioBank, PhysioToolkit, and PhysioNet: Components of a New Research Resource for Complex Physiologic Signals. Circulation 101(23):e215-e220 [Circulation Electronic Pages; http://circ.ahajournals.org/content/101/23/e215]; 2000 (June 13). [bib]

@article{PhysioNet,
  author    = {Goldberger, Ary L. and Amaral, Luis A. N.
               and Glass, Leon and Hausdorff, Jeffrey M.
               and Ivanov, Plamen Ch. and Mark, Roger G.
               and Mietus, Joseph E. and Moody, George B.
               and Peng, Chung-Kang and Stanley, H. Eugene},
  title     = {{PhysioBank}, {PhysioToolkit}, and {PhysioNet}:
               Components of a New Research Resource for Complex
               Physiologic Signals},
  journal   = {Circulation},
  publisher = {American Heart Association, Inc.},
  volume    = {101},
  number    = {23},
  year      = {2000},
  month     = {June},
  pages     = {e215--e220},
  doi       = {10.1161/01.CIR.101.23.e215},
  issn      = {0009-7322},
  url       = {http://circ.ahajournals.org/content/101/23/e215}
}

Introduction

This dataset contains signals and numerics extracted from the much larger MIMIC II matched waveform Database, along with manual breath annotations made from two annotators, using the impedance respiratory signal.

Data Collection

The original data was acquired from critically-ill patients during hospital care at the Beth Israel Deaconess Medical Centre (Boston, MA, USA). Two annotators manually annotated individual breaths in each recording using the impedance respiratory signal. The 53 recordings within the dataset, each of 8-minute duration, each contain:

Physiological signals, such as the PPG, impedance respiratory signal, and electrocardiogram (ECG). These are sampled at 125 Hz.
Physiological parameters, such as the heart rate (HR), respiratory rate (RR), and blood oxygen saturation level (SpO2). These are sampled at 1 Hz.
Fixed parameters, such as age and gender
Manual annotations of breaths.

This dataset was first reported in the referenced publication, in which the data was used to evaluate the performance of different algorithms for estimating respiratory rate from the pulse oximetry, or photoplethysmogram (PPG) signal.

Data Files

The dataset is distributed in three formats:

WFDB (WaveForm DataBase) format, which is the standard format used by PhysioNet.
CSV (comma-separated-value) format
Matlab (r) format, in a manner which is a compatible with the RRest Toolbox of respiratory rate algorithms

WFDB Format

Five files are provided for each recording (where ## is the subject number):

bidmc##.breath: Manual breath annotations
bidmc##.dat: Waveform data file
bidmc##.hea: Waveform header file
bidmc##n.dat: Numerics data file
bidmc##n.hea: Numerics header file

Further details on the contents of each file are provided here

CSV Format

Separate CSV files are provided for each recording (where ## is the subject number), containing:

bidmc_##_Breaths.csv: Manual breath annotations
bidmc_##_Signals.csv: Physiological signals
bidmc_##_Numerics.csv: Physiological parameters
bidmc_##_Fix.txt: Fixed variables

Matlab (r) Format

The *bidmc_data.mat* file contains the following subset of the dataset in a single Matlab (r) variable named *data*. The following are provided for each of the 53 recordings:

ekg: Lead II ECG signal. Each signal is provided in a structure, where the *v* field denotes the signal values, and *fs* is the sampling frequency.
ppg: Photoplethysmogram signal
ref.resp_sig.imp: Impedance respiratory signal
ref.breaths: Manual annotations of breaths provided by two independent annotators. A vector of sample numbers is provided, which correspond to the signal sample numbers.
ref.params: Physiological parameters: rr (respiratory rate, derived by the monitor from the impedance signal, breaths per minute), hr (heart rate, derived from the ECG, beats per minute), pr (pulse rate, derived from the PPG, beats per minute), spo2 (blood oxygen saturation level, %).
fix: A structure of fixed variables, including: id (the MIMIC II matched waveform database subject ID and recording identifier), loc (the ward location), and source (the URLs from which the original data were downloaded).

Contributors

For more information about the dataset, please contact the authors at: marco.pimentel@eng.ox.ac.uk, peter.charlton@kcl.ac.uk.

 Name                    Last modified      Size  Description
 Parent Directory                             -   
 ANNOTATORS              2018-06-20 13:15   77   list of annotators
 DBS                     2018-06-20 13:15   44   
 DOI                     2018-08-29 16:49   19   
 LICENSE                 2018-06-20 13:15  939   
 MD5SUMS                 2018-08-30 16:38   12K  
 RECORDS                 2018-10-19 18:48  424   list of record names
 SHA1SUMS                2018-08-30 16:38   15K  
 SHA256SUMS              2018-08-30 16:38   21K  
 bidmc01.breath          2018-06-20 13:15  2.6K  
 bidmc01.dat             2018-06-20 13:15  586K  digitized signal(s)
 bidmc01.hea             2018-06-20 13:15  595   header file
 bidmc01n.dat            2018-06-20 13:15  3.8K  digitized signal(s)
 bidmc01n.hea            2018-06-20 13:15  514   header file
 bidmc02.breath          2018-06-20 13:15  1.9K  
 bidmc02.dat             2018-06-20 13:15  586K  digitized signal(s)
 bidmc02.hea             2018-06-20 13:15  598   header file
 bidmc02n.dat            2018-06-20 13:15  3.8K  digitized signal(s)
 bidmc02n.hea            2018-06-20 13:15  514   header file
 bidmc03.breath          2018-06-20 13:15  2.2K  
 bidmc03.dat             2018-06-20 13:15  703K  digitized signal(s)
 bidmc03.hea             2018-06-20 13:15  665   header file
 bidmc03n.dat            2018-06-20 13:15  3.8K  digitized signal(s)
 bidmc03n.hea            2018-06-20 13:15  529   header file
 bidmc04.breath          2018-06-20 13:15  2.0K  
 bidmc04.dat             2018-06-20 13:15  703K  digitized signal(s)
 bidmc04.hea             2018-06-20 13:15  659   header file
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 bidmc04n.hea            2018-06-20 13:15  515   header file
 bidmc05.breath          2018-06-20 13:15  1.0K  
 bidmc05.dat             2018-06-20 13:15  586K  digitized signal(s)
 bidmc05.hea             2018-06-20 13:15  593   header file
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 bidmc05n.hea            2018-06-20 13:15  521   header file
 bidmc06.breath          2018-06-20 13:15  2.5K  
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 bidmc06n.hea            2018-06-20 13:15  515   header file
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 bidmc07.dat             2018-06-20 13:15  820K  digitized signal(s)
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 bidmc08.dat             2018-06-20 13:15  820K  digitized signal(s)
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 bidmc08n.hea            2018-06-20 13:15  516   header file
 bidmc09.breath          2018-06-20 13:15  2.5K  
 bidmc09.dat             2018-06-20 13:15  703K  digitized signal(s)
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 bidmc09n.hea            2018-06-20 13:15  501   header file
 bidmc10.breath          2018-06-20 13:15  2.3K  
 bidmc10.dat             2018-06-20 13:15  703K  digitized signal(s)
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 bidmc11.dat             2018-06-20 13:15  586K  digitized signal(s)
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 bidmc12.dat             2018-06-20 13:15  586K  digitized signal(s)
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 bidmc13.dat             2018-06-20 13:15  586K  digitized signal(s)
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 bidmc14.breath          2018-06-20 13:15  1.7K  
 bidmc14.dat             2018-06-20 13:15  586K  digitized signal(s)
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 bidmc20.breath          2018-06-20 13:15  1.9K  
 bidmc20.dat             2018-06-20 13:15  586K  digitized signal(s)
 bidmc20.hea             2018-06-20 13:15  590   header file
 bidmc20n.dat            2018-06-20 13:15  3.8K  digitized signal(s)
 bidmc20n.hea            2018-06-20 13:15  520   header file
 bidmc21.breath          2018-06-20 13:15  2.2K  
 bidmc21.dat             2018-06-20 13:15  586K  digitized signal(s)
 bidmc21.hea             2018-06-20 13:15  594   header file
 bidmc21n.dat            2018-06-20 13:15  3.8K  digitized signal(s)
 bidmc21n.hea            2018-06-20 13:15  514   header file
 bidmc22.breath          2018-06-20 13:15  2.3K  
 bidmc22.dat             2018-06-20 13:15  820K  digitized signal(s)
 bidmc22.hea             2018-06-20 13:15  721   header file
 bidmc22n.dat            2018-06-20 13:15  3.8K  digitized signal(s)
 bidmc22n.hea            2018-06-20 13:15  522   header file
 bidmc23.breath          2018-06-20 13:15  2.2K  
 bidmc23.dat             2018-06-20 13:15  703K  digitized signal(s)
 bidmc23.hea             2018-06-20 13:15  657   header file
 bidmc23n.dat            2018-06-20 13:15  3.8K  digitized signal(s)
 bidmc23n.hea            2018-06-20 13:15  525   header file
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 bidmc24.dat             2018-06-20 13:15  820K  digitized signal(s)
 bidmc24.hea             2018-06-20 13:15  733   header file
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 bidmc24n.hea            2018-06-20 13:15  525   header file
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 bidmc25.dat             2018-06-20 13:15  586K  digitized signal(s)
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 bidmc28n.hea            2018-06-20 13:15  521   header file
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 bidmc_csv/              2018-06-20 12:13    -   
 bidmc_data.mat          2018-06-20 13:15   28M

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Updated Friday, 28 October 2016 at 16:58 EDT

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