--- a +++ b/SCHEMA.md @@ -0,0 +1,98 @@ +**metadata** + +Here is a list of each metadata field, with explanations where relevant + +| Attribute | Description | +|------|-----| +| patientid | Internal identifier | +| offset | Number of days since the start of symptoms or hospitalization for each image. If a report indicates "after a few days", then 5 days is assumed. This is very important to have when there are multiple images for the same patient to track progression. | +| sex | Male (M), Female (F), or blank | +| age | Age of the patient in years | +| finding | Type of pneumonia | +| RT_PCR_positive | Yes (Y) or no (N) or blank if not reported/taken | +| survival | Yes (Y) or no (N) or blank if unknown| +| intubated | Yes (Y) if the patient was intubated (or ventilated) at any point during this illness or No (N) or blank if unknown. | +| went_icu | Yes (Y) if the patient was in the ICU (intensive care unit) or CCU (critical care unit) at any point during this illness or No (N) or blank if unknown.| +| needed_supplemental_O2 | Yes (Y) if the patient required supplemental oxygen at any point during this illness or No (N) or blank if unknown | +| extubated | Yes (Y) if the patient was successfully extubated or No (N) or blank if unknown | +| temperature | Temperature of the patient in Celsius at the time of the image| +| pO2 saturation | partial pressure of oxygen saturation in % at the time of the image | +| wbc count | white blood cell count in units of 10^3/uL at the time of the image | +| neutrophil count | neutrophil cell count in units of 10^3/uL at the time of the image | +| lymphocyte count | lymphocyte cell count in units of 10^3/uL at the time of the image | +| view | Posteroanterior (PA), Anteroposterior (AP), AP Supine (APS), or Lateral (L) for X-rays; Axial or Coronal for CT scans. Translations: Bettaufnahme->Supine, Liegend->Supine| +| modality | CT, X-ray, or something else | +| date | Date on which the image was acquired | +| location | Hospital name, city, state, country | +| filename | Name with extension | +| doi | Digital object identifier ([DOI](https://en.wikipedia.org/wiki/Digital_object_identifier)) of the research article | +| url | URL of the paper or website where the image came from | +| license | License of the image such as CC BY-NC-SA. Blank if unknown | +| clinical notes | Clinical notes about the image and/or the patient | +| other notes | e.g. credit | + +Within the finding field, the following mappings have been used to simplify the findings in the source: + +| Original Finding | Simplified Finding | +| ------------------ | ------------------- | +| Tuberculous spondylodiscitis | Spinal Tuberculosis | +| No Finding | No Finding | +| COVID-19 | COVID-19 | +| Swine-Origin Influenza A (H1N1) Viral Pneumonia | Swine-Origin Influenza A (H1N1) Viral Pneumonia | +| Complicated Legionnaires' disease. | Legionella | +| No Finding | No Finding | +| Disseminated "miliary" tuberculosis during biologic (adalimumab) treatment for Crohn's disease | Tuberculosis | +| Invasive Aspergillosis and Aspergilloma causing Pneumopericardium. | Invasive Aspergillosis | +| Herpes pneumonia and ARDS | "Herpes pneumonia" or "Herpes pneumonia, ARDS" based on sequence +| Acute Respiratory Distress Syndrome: a Sequela of Asphyxiation Injury | ARDS | +| ARDS secondary to fat embolism | ARDS | +| Accelerated Phase Usual Interstitial Pneumonia | Accelerated Phase Usual Interstitial Pneumonia | +| Cystic form of pneumocystis jirovecii pneumonia. | Pneumocystis | +| Round pneumonia | Round pneumonia | +| Pneumocytis jiroveci pneumonia | Pneumocystis | +| Lymphocytic interstitial pneumonia | Lymphocytic interstitial pneumonia | +| Idiopathic cryptogenic organizing pneumonia (COP) | Cryptogenic Organizing Pneumonia | +| Streptococcus pneumonia and multiple pulmonary emboli | Streptococcus | +| Fire-eater's pneumonia. | Lipoid | +| Allergic bronchopulmonary aspergillosis | Allergic bronchopulmonary aspergillosis | +| Cryptogenic organising pneumonia | Cryptogenic organising pneumonia | +| Chronic eosinophilic pneumonia | Chronic eosinophilic pneumonia | +| Aspiration pneumonia | Aspiration pneumonia | +| Pneumocystis Jirovecci Infection in an HIV patient. | Pneumocystis | +| Endobronchial tuberculosis (EBTB). | Tuberculosis | +| Endobronchial spread of tuberculosis. | Tuberculosis | +| Hydropneumothorax as the initial manifestation of postprimary tuberculosis. | Tuberculosis | +| Pulmonary nocardia infection in HIV | Nocardia | +| Empyema necessitans as manifestation of tuberculosis | Tuberculosis | +| MERS-CoV | MERS | +| Tuberculosis with consolidation | Tuberculosis | +| Klebsiella pneumonia | Klebsiella | +| Acute eosinophilic pneumonia | Eosinophilic pneumonia | +| Miliary tuberculosis | Tuberculosis | +| Bilateral pulmonary nodules - tuberculous granulomas | Tuberculosis | +| Pneumonia in transplant lungs (description mentions Mycoplasma) | Mycoplasma Bacterial Pneumonia | +| Tuberculosis - left upper lobe | Tuberculosis | +| Cavitating pneumonia - lingular segments | Pneumonia | +| Community acquired methicillin resistant staphylococcus aureus pneumonia | MRSA | +| Streptococcus | Pneumococcal pneumonia | +| Klebsiella pneumonia causing a bulging fissure | Klebsiella | +| Tree-in-bud caused by haemophilus influenzae | Influenza | +| Right middle lobe pneumonia | Pneumonia | +| Left lower lobe pneumonia | Pneumonia | +| Silhouette sign of Felson: right middle lobe pneumonia | Pneumonia | +| Left lower lobe pneumonia | Pneumonia | + +When the view field is provided in the text/image, but is not explicit, the following mappings have been used: + +| Original view | Simplified view | +| ------------- | --------------- | +| (AP) (Mobile) Sitting | AP | +| (AP) Seduto | AP | +| (AP) Seduto a letto | AP | +| (AP) (Mobile) AP Semi-Erect | AP | +| (AP) (Mobile) Semi-Erect | AP | +| (AP) Semiseduto | AP | +| (AP) (Mobile) Supine | AP Supine | +| (AP) Supino | AP Supine | +| SUP | AP Supine | +| Semi-Supine | AP Supine |