Table 1. Other published datasets that included human infants aged <3 months (whole blood).
| GEO / EBI
accession # |
Citation | Type of
data |
Platform | # infants | Study population |
|---|---|---|---|---|---|
| GSE69686 | 15 | Gene array | Affymetrix GeneChip GGh3 Transcriptome Array | 68 | Newborns admitted to NICU within 24h of sepsis evaluation (US) |
| GSE25504 | 11, 12 | Gene array | Affymetrix Human Genome U133 Plus 2.0 Array;
Illumina Human HT-12 V3.0 expression beadchip; Affymetrix Human Genome U219 Array |
62/30/69 | Newborns admitted to NICU and i) evaluated for sepsis either
i) confirmed or ii) suspected (cases) or iii) “well” (controls) (Scotland) |
| EMTAB4785 | 13 | Gene array | Affymetrix GeneChip Human 1.0 ST GeneChip | 17/19 | VLBW neonates with risk factors
* and clinical signs of sepsis, or
matched controls ¶ (Spain) |
| GSE53471 | 36 | Gene array | Affymetrix Human Genome U219 Array | 113 | Cord blood from infants born vaginally >36 weeks of gestation
(Finland, Estonia, Russia) |
| GSE64456 | 25 | Gene array | Illumina Human HT-12 V4.0 expression beadchip | 279/19 | Term infants <60 days evaluated for i) fever (emergency
department; cases) or ii) healthy control infants aged 0-6 months (US) |
| GSE70461 | 37 | Gene array | Affymetrix Human Genome U133 Plus 2.0 Array | 20 | Newborns <33 weeks in NICU (Norway) |
|
GSE111404
GSE123070 |
27 | RNA-Seq | Illumina HiSeq 2500 | 60 | Healthy term (>36 weeks; >2.5 kg birth weight) (Gambia and
Papua New Guinea) |
| GSE138712 | 38 | RNA-Seq | Illumina HiSeq 2500 | 18 | Preterm neonates born <30 weeks of gestation admitted to the
NICU investigated for sepsis in the first 42 days of life (Australia) |
| GSE40396 | 39 | Gene array | Illumina Human HT-12 V4.0 expression beadchip | 4/0/1 | Children 2-36 months with i) fever without a source, ii) bacterial
infection or iii) well/afebrile, having outpatient surgery (US) |
| GSE6269 | 40 | Gene array | Affymetrix Human Genome U133A Array
Affymetrix Human Genome U133 Plus 2.0 Array Sentrix Human-6 Expression BeadChip |
16/0/1/3 | Children/adults with i) E. coli, ii) S. aureus, iii) S. pneumonia or
iv) influenza A infection (US) |
*risk factors: maternal chorioamnionitis, incomplete group B streptococcus (GBS) perinatal prophylaxis, unknown GBS status, rupture of membranes >18 hours, maternal fever during labor, premature labor incompletely treated with antibiotics, neonates with indwelling devices, neonates with recent surgery (<72 hours); ¶matched for gestational age, birth weight, gender, ethnicity, mode of delivery, antenatal steroids, postnatal age and “clinical status”.
GEO: Gene Expression Omnibus EBI: European Bioinformatics Institute; NICU, neonatal intensive care unit; VLBW: Very low birth weight (1,500 g birth weight).