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SNPnexus: A valuable tool in the fight against COVID-19

8 February 2021

Professor Claude Chelala
Professor Claude Chelala

Researchers from Barts Cancer Institute (BCI), Queen Mary University of London, have released a web-based tool called SNPnexus COVID (https://www.snp-nexus.org/v4/covid/) to streamline the analysis of host genetic sequencing data and allow for the identification and prioritisation of genetic variants that may impact an individual's susceptibility to and the severity of COVID-19 infection.

Since the emergence of the COVID-19 pandemic, global initiatives to sequence the genomes of patients infected with the virus have driven an expanding new field of host genomics research. Analysing these sequencing data within a clinically relevant turnaround time is imperative given the urgency of research efforts to understand the biology of COVID-19 disease.

In response to this and with support from Barts Charity and Queen Mary Impact Acceleration Account programme, the Bioinformatics Team at BCI, led by Professor Claude Chelala, Professor of Bioinformatics and IADS Executive Board member, have developed SNPnexus COVID, a web-based variant annotation tool designed to facilitate the study of genomes of COVID-19 patients. The cutting-edge analytical platform allows researchers to analyse and interpret the functional implications of genetic variants in COVID-19 patient genomes and to prioritise those that demonstrate clinical utility for the prevention, management and/or treatment of COVID-19.

Professor Chelala said: "I am grateful to Barts Charity and Queen Mary for the generous support to customise SNPnexus to ensure sequencing data from patients can be easily analysed to maximise research output. Thinking about the huge scope of possibilities SNPnexus could provide to support COVID-19 research is actually very exciting. SNPnexus COVID brought together key members of my team: first authors of the study Dr Jorge Oscanoa (software engineer) and Miss Lavanya Sivapalan (PhD student) with Dr Emanuela Gadaleta (Bioinformatician) and Dr Maryam Abdollahyan (data scientist)."

An original article was published on the Cancer Research UK Barts Centre webpage here.

https://www.biorxiv.org/content/10.1101/2020.12.18.423439v1

SNPnexus: Assessing the impact of genetic variation

Link: https://www.bartscancer.london/general-news/2021/02/snpnexus...

Updated by: Michal Filus