Table 1 Characteristics of viral infection studies used for training. COPD chronic pulmonary obstruction disorder, ICU intensive care unit, TB tuberculosis, CAP community-acquired pneumonia.
Study identifier | First author or PI | Study description | Timing of sample collection | N (survivors/non-survivors) | Age (median, IQR) | Male (n (%)) | Country | Platform |
|---|---|---|---|---|---|---|---|---|
E-MEXP-3589 | Almansa | Patients hospitalized with COPD exacerbation | Hospital/ICU admission | 5 (5/0) | Unk | 5(100) | Spain | Agilent |
E-MTAB-1548 | Almansa | Surgical patients with sepsis (EXPRESS) | Average post-operation day 4 | 3 (3/0) | 78.0 (71.5–79.5) | 3(100) | Spain | Agilent |
E-MEXP-3162 | Van de Weg | Uncomplicated dengue | Within 48 h of onset | 21 (21/0) | Unk | Unk | Indonesia | Affymetrix |
GSE13015 (GPL6102) | Pankla | Sepsis, many cases from burkholderia | Within 48 h of diagnosis | 3 (2/1) | 54.0 (46.0–55.5) | 1(33) | Thailand | Illumina |
GSE13015 (GPL6947) | 2 (2/0) | 64.5 (56.2–72.8) | 1(50) | Illumina | ||||
GSE21802 | Bermejo-Martin | Pandemic H1N1 in ICU | Within 48 h of ICU admission | 6 (5/1) | Unk | Unk | Canada | Illumina |
GSE22098 | Berry | Patients with active TB and other inflammatory and infectious diseases | At admission | 39 (39/0) | 31.0 (19.0–47.0) | 6(15) | UK, South Africa | Illumina |
GSE27131 | Berdal | Severe H1N1 influenza | Admission to ICU | 3 (2/1) | 38.0 (31.5–46.0) | 3(100) | Norway | Affymetrix |
GSE28991 | Naim | Acute dengue fever | Within 72 h of onset | 11 (11/0) | Unk | Unk | Singapore | Illumina |
GSE32707 | Dolinay | Critically ill patients in ICU (Sepsis, SIRS and/or ARDS) | Admission to ICU | 7 (5/2) | 45.0 (39.0–50.5) | 4(57) | USA | Illumina |
GSE40012 | Parnell | Bacterial or influenza A pneumonia or SIRS | Admission to ICU | 11 (11/0) | Unk | 4(36) | Australia | Illumina |
GSE54514 | Parnell | Sepsis patients in ICU | Admission to ICU | 2 (2/0) | 62.5 (60.2–64.8) | 1(50) | Australia | Illumina |
GSE51808 | Kwissa | Acute dengue fever | 1–8 days after onset | 28 (28/0) | Unk | Thailand | Affymetrix | |
GSE60244 | Suarez | Lower respiratory tract infections | Within 24 h of admission | 62 (62/0) | 59.0 (50.0–74.5) | 24(39) | USA | Illumina |
GSE65682 | Scicluna | Suspected but negative for CAP | Within 24 h of ICU admission | 9 (7/2) | 67.0 (63.0–73.0) | 7(78) | Netherlands | Affymetrix |
GSE68310 | Zhai | Outpatients with acute respiratory viral infections | Within 48 h of onset | 75 (75/0) | 21.0 (20.4–22.3) | 34(45) | USA | Illumina |
GSE82050 | Tang | Moderate and severe influenza infection | Within 24 h of admission | 17 (17/0) | 55.0 (45.0–72.0) | Unk | Germany | Agilent |
GSE95233 | Venet | Septic shock patients in ICU | Admission to ICU | 7 (5/2) | 47.0 (42.0–65.0) | 5(71) | France | Affymetrix |
Australia/WIMR | Tang | Community or hospital clinics with influenza-like illness | At presentation | 332 (321/11) | 48.0 (32.0–63.5) | 129(39) | Australia | Nanostring |
Stanford ICU databank | Rogers | Suspected sepsis with ARDS risk factors | Admission to ICU | 8 (6/2) | 62.0 (55.5–67.2) | 4(50) | USA | Nanostring |
PROMPT | Giamarellos-Bourboulis | Suspected infection with 2 + SIRS | Admission to ED | 1 (1/0) | 78.0 | 0(0) | Greece | Nanostring |
PREVISE | Herrero | Outpatient urgent care with suspected CAP | At presentation | 53 (52/1) | 78.0 (66.0–87.0) | 33(62) | Spain | Nanostring |
