Journal Article

Development of a Bioinformatics Framework for Identification and Validation of Genomic Biomarkers and Key Immunopathology Processes and Controllers in Infectious and Non-infectious Severe Inflammatory Response Syndrome

Szakmany, Tamas, Tong, Dong Ling, Ball, Graham, Kempsell, Karen E.

2020

Overview

Sepsis is defined as dysregulated host response caused by systemic infection, leading to organ failure. It is a life-threatening condition, often requiring admission to an intensive care unit (ICU). The causative agents and processes involved are multifactorial but are characterized by an overarching inflammatory response, sharing elements in common with severe inflammatory response syndrome (SIRS) of non-infectious origin. Sepsis presents with a range of pathophysiological and genetic features which make clinical differentiation from SIRS very challenging. This may reflect a poor understanding of the key gene inter-activities and/or pathway associations underlying these disease processes. Improved understanding is critical for early differential recognition of sepsis and SIRS and to improve patient management and clinical outcomes. Judicious selection of gene biomarkers suitable for development of diagnostic tests/testing could make differentiation of sepsis and SIRS feasible. Here we describe a methodologic framework for the identification and validation of biomarkers in SIRS, sepsis and septic shock patients, using a 2-tier gene screening, artificial neural network (ANN) data mining technique, using previously published gene expression datasets. Eight key hub markers have been identified which may delineate distinct, core disease processes and which show potential for informing underlying immunological and pathological processes and thus patient stratification and treatment. These do not show sufficient fold change differences between the different disease states to be useful as primary diagnostic biomarkers, but are instrumental in identifying candidate pathways and other associated biomarkers for further exploration.

• Publisher: Frontiers Media SA,Frontiers Media S.A
• Subject: adult / artificial neural network (ANN) / Bacterial infections / Bioinformatics / Biomarkers / Computational Biology - methods / Datasets / Disseminated infection / Gene expression / gene interaction / Genetic Markers / Humans / Immunology / Inflammation / Neural networks / Neural Networks, Computer / Pathology / Patients / pediatric / Sepsis / Sepsis - diagnosis / Sepsis - genetics / Septic shock / SIRS / Systemic Inflammatory Response Syndrome - diagnosis / Systemic Inflammatory Response Syndrome - genetics