Author First name, Last name, Institution

Asrar Rashid, Edinburgh Napier University; NMC Royal Hospital, Abu Dhabi, United Arab Emirates
Feras Al-Obeidat, Zayed University
Hari Krishnan Kanthimathinathan, Birmingham Children's Hospital
Govind Benakatti, Yas Clinic, Abu Dhabi, United Arab Emirates
Wael Hafez, National Research Centre; NMC Royal Hospital, Abu Dhabi, United Arab Emirates
Raghu Ramaiah, University of Leicester
Joe Brierley, Great Ormond Street Children's Hospital, London, UK
Benjamin Hanisch, Children’s National Health System
Praveen Khilnani, Medanta Gururam, Delhi, India
Christos Koutentis, SUNY Downstate Medical Center
Berit S. Brusletto, Oslo University Hospital
Mohammed Toufiq, Jackson Laboratory
Zain Hussain, Edinburgh Medical School, University go Edinburgh, Edinburgh, UK
Harish Vyas, University of Nottingham
Zainab A Malik, Mohammed Bin Rashid University of Medicine and Health Sciences
Maike Schumacher, Shaikh Khalifa Medical City
Rayaz A Malik, University of Manchester; Weill Cornell Medicine - Qatar
Shriprasad Deshpande, Children’s National Health System
Nasir Quraishi, Queen's Medical Centre; University of Nottingham
Raziya Kadwa, NMC Royal Hospital, Abu Dhabi, United Arab Emirates
Amrita Sarpal, Weill Cornell Medicine - Qatar; Sidra Medical and Research Center
M. Guftar Shaikh, Royal Hospital for Children
Javed Sharief, NMC Royal Hospital, Abu Dhabi, United Arab Emirates
Syed Ahmed Zaki, All India Institute of Medical Sciences
Rajesh Phatak, Pediatric Intensive Care, Burjeel Hospital, Najda, Abu Dhabi, United Arab Emirates
Akash Deep, King's College Hospital
Ahmed Al-Dubai, Edinburgh Napier University
Amir Hussain, Edinburgh Napier University

Document Type


Source of Publication

Informatics in Medicine Unlocked

Publication Date



Sepsis continues to be recognized as a significant global health challenge across all ages and is characterized by a complex pathophysiology. In this scoping review, PRISMA-ScR guidelines were adhered to, and a transcriptomic methodology was adopted, with the protocol registered on the Open Science Framework. We hypothesized that gene expression analysis could provide a foundation for establishing a clinical research framework for sepsis. A comprehensive search of the PubMed database was conducted with a particular focus on original research and systematic reviews of transcriptomic sepsis studies published between 2012 and 2022. Both coding and non-coding gene expression studies have been included in this review. An effort was made to enhance the understanding of sepsis at the mRNA gene expression level by applying a systems biology approach through transcriptomic analysis. Seven crucial components related to sepsis research were addressed in this study: endotyping (n = 64), biomarker (n = 409), definition (n = 0), diagnosis (n = 1098), progression (n = 124), severity (n = 451), and benchmark (n = 62). These components were classified into two groups, with one focusing on Biomarkers and Endotypes and the other oriented towards clinical aspects. Our review of the selected studies revealed a compelling association between gene transcripts and clinical sepsis, reinforcing the proposed research framework. Nevertheless, challenges have arisen from the lack of consensus in the sepsis terminology employed in research studies and the absence of a comprehensive definition of sepsis. There is a gap in the alignment between the notion of sepsis as a clinical phenomenon and that of laboratory indicators. It is potentially responsible for the variable number of patients within each category. Ideally, future studies should incorporate a transcriptomic perspective. The integration of transcriptomic data with clinical endpoints holds significant potential for advancing sepsis research, facilitating a consensus-driven approach, and enabling the precision management of sepsis.




Elsevier BV



First Page


Last Page



Medicine and Health Sciences

Indexed in Scopus


Open Access


Open Access Type

Hybrid: This publication is openly available in a subscription-based journal/series