David A. Smith
Postdoctoral Bioinformatician
I am working as a post-doctoral bioinformatician focusing on host-pathogen genomics. My current work focuses on how -omic variation in host and pathogen modulate the response to infection in the context of sepsis and COVID-19. I also have an interest in the linkage and integration of routinely collected hospital data and -omic data, with the goal of identifying associations between biomarkers and -omic signatures of the dysregulated response to infection.
I received my undergraduate degree in Biomedical Sciences from the University of Portsmouth in 2011. After a year running a bar and windsurfing in Egypt, I worked for the NHS working in Clinical Research Governance. In 2014 I started began working on the NIHR Health Informatics Collaborative in Oxford which is a multi centre project with the aim of integrating clinical data from electronic patient records and using this for clinical research into viral hepatitis. Whilst working for the NIHR Health Informatics Collaborative I completed my DPhil in Professor Ellie Barnes’s group at the University of Oxford finishing in 2020. My DPhil work was focused on the characterisation of Hepatitis C Virus anti-viral resistance.
Key publications
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Viral genome wide association study identifies novel hepatitis C virus polymorphisms associated with sofosbuvir treatment failure
Journal article
Smith DA. et al, (2021), Nature Communications, 12
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Resistance analysis of genotype 3 hepatitis C virus indicates subtypes inherently resistant to nonstructural protein 5A inhibitors
Journal article
Smith D. et al, (2019), Hepatology, 69, 1861 - 1872
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Genome-to-genome analysis highlights the effect of the human innate and adaptive immune systems on the hepatitis C virus
Journal article
Ansari MA. et al, (2017), Nature Genetics, 49, 666 - 673
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Efficacy of NS5A inhibitors against unusual and potentially difficult-to-treat HCV subtypes commonly found in sub-Saharan Africa and South East Asia
Journal article
Nguyen D. et al, (2020), Journal of Hepatology, 73, 794 - 799
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Real world SOF/VEL/VOX retreatment outcomes and viral resistance analysis for HCV patients with prior failure to DAA therapy
Journal article
Smith DA. et al, (2021), Journal of Viral Hepatitis
Recent publications
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Impact of the COVID-19 pandemic on routine surveillance for adults with chronic hepatitis B virus (HBV) infection in the UK
Preprint
Campbell C. et al, (2023)
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An immune dysfunction score for stratification of patients with acute infection based on whole-blood gene expression
Journal article
Cano-Gamez E. et al, (2022), Science Translational Medicine, 14
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Identifying Hepatocellular Carcinoma from imaging reports using natural language processing to facilitate data extraction from electronic patient records
Preprint
Wang T. et al, (2022)
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Cohort Profile: The National Institute for Health Research Health Informatics Collaborative: Hepatitis B Virus (NIHR HIC HBV) research dataset
Journal article
Wang T. et al, (2022), International Journal of Epidemiology
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An immune dysfunction score for stratification of patients with acute infection based on whole blood gene expression
Preprint
Cano-Gamez E. et al, (2022)