Description | COD1A: A Transcriptomic Reporter Assay Employing Neutrophils to Measure Immunogenic Activity of Septic Patients Plasma - Neutrophils, experiment I - GSE49755 |
Purpose | to assess the immunogenicity of plasma from septic patients and evaluate its potential for biomarker discovery |
Experimental Design | Polymorphonuclear neutrophils (PMNs) were isolated from two healthy donors. Plasma samples were obtained from patients with culture-confirmed sepsis (n=12) and from uninfected controls (n=12). PMNs were cultured for 6 hours in medium alone, plasma from patients with sepsis, plasma from uninfected controls, and LPS using a final concentration of 20%. Transcriptional profiles were acquired using Illumina HumanHT12 V4 BeadChips. |
Experimental Variables | Septic Plasma Exposure (2021 ICD-10-CM code* = Not Applicable) |
Methods | The data were preprocessed using R, which included the following steps: quantile normalization, flooring all intensities <10 to 10, log2 transformation, and PALO (present at least once) filter. PALO, which selects only transcripts with detection p-values < 0.01 in at least one sample, was performed to reduce background noise. |
Additional Information | Part of the SuperSeries, GSE49758, "A Transcriptomic Reporter Assay Employing Neutrophils to Measure Immunogenic Activity of Septic Patients' Plasma". |
Platform | Illumina HumanHT-12 v4 |
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